Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold424
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 897778
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.32
File 5 of 6
Found at i:681306 original size:25 final size:26
Alignment explanation
Indices: 681269--681327 Score: 86
Period size: 26 Copynumber: 2.3 Consensus size: 26
681259 GGCGTCCTCT
681269 ACAAAAAAAAAA-AACAAACAAACAA-A
1 ACAAAAAAAAAAGAA-AAA-AAACAACA
681295 ACAAAAAAAAAAGAAAAAAAACAACA
1 ACAAAAAAAAAAGAAAAAAAACAACA
681321 ACAAAAA
1 ACAAAAA
681328 GGGTTCGGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
25 6 0.19
26 23 0.74
27 2 0.06
ACGTcount: A:0.85, C:0.14, G:0.02, T:0.00
Consensus pattern (26 bp):
ACAAAAAAAAAAGAAAAAAAACAACA
Found at i:682791 original size:30 final size:30
Alignment explanation
Indices: 682757--682813 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
682747 ACCCTATCAA
* * *
682757 AAGCCCATAAGTCAGTGGCACCCTTTTCCG
1 AAGCCCACAACTCAGTGGCACCATTTTCCG
*
682787 AAGCCCACAACTCCGTGGCACCATTTT
1 AAGCCCACAACTCAGTGGCACCATTTT
682814 TCTTTTTAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.25, C:0.35, G:0.18, T:0.23
Consensus pattern (30 bp):
AAGCCCACAACTCAGTGGCACCATTTTCCG
Found at i:682865 original size:34 final size:34
Alignment explanation
Indices: 682787--683190 Score: 535
Period size: 34 Copynumber: 11.8 Consensus size: 34
682777 CCCTTTTCCG
*
682787 AAGCCCACAACTCCGTGGCAC-CATTTTTCTTTTT
1 AAGCCCACAACTCCGTGGCACTC-TTTTTCCTTTT
*
682821 AAAGCCCACAACTCTGTGGCACTCTTTTTCCTTTT
1 -AAGCCCACAACTCCGTGGCACTCTTTTTCCTTTT
* *
682856 AAGCCCACAACTCTGTGGTACTCTTTTTTCCTTTT
1 AAGCCCACAACTCCGTGGCACTC-TTTTTCCTTTT
*
682891 AAGCCCACAACTCCGTGGCACTCTTTTTCCTTCT
1 AAGCCCACAACTCCGTGGCACTCTTTTTCCTTTT
* * *
682925 AAGTCCACGAGTCCGTGGCAC-CTTTTT-CTTTT
1 AAGCCCACAACTCCGTGGCACTCTTTTTCCTTTT
* *
682957 AAGCCCATAACTCTGTGGCACTCTTTTTCCTTTT
1 AAGCCCACAACTCCGTGGCACTCTTTTTCCTTTT
682991 AAGCCCACAACTCCGTGGCACTCTTTTTTCCTTTT
1 AAGCCCACAACTCCGTGGCACTC-TTTTTCCTTTT
* *
683026 ATGCCCACAACTCCGTGGCACTCTTTTTCCTTCT
1 AAGCCCACAACTCCGTGGCACTCTTTTTCCTTTT
* ** *
683060 AAGTCCATGACTCCGTGGCACTTTTTTTCCTTTT
1 AAGCCCACAACTCCGTGGCACTCTTTTTCCTTTT
* *
683094 AAGCCCACAACTCCATGGCACTTTTTTTTTCCTTTT
1 AAGCCCACAACTCCGTGGCAC--TCTTTTTCCTTTT
*
683130 AAGCCCACAACTCCATGGCACTCTTTTTCCTTTT
1 AAGCCCACAACTCCGTGGCACTCTTTTTCCTTTT
* * *
683164 AAGTCCACAACTCCATGGCACCCTTTT
1 AAGCCCACAACTCCGTGGCACTCTTTT
683191 AAGCCCACAA
Statistics
Matches: 330, Mismatches: 32, Indels: 15
0.88 0.08 0.04
Matches are distributed among these distances:
32 20 0.06
33 12 0.04
34 168 0.51
35 95 0.29
36 35 0.11
ACGTcount: A:0.18, C:0.32, G:0.12, T:0.37
Consensus pattern (34 bp):
AAGCCCACAACTCCGTGGCACTCTTTTTCCTTTT
Found at i:682895 original size:69 final size:69
Alignment explanation
Indices: 682787--683190 Score: 541
Period size: 69 Copynumber: 5.9 Consensus size: 69
682777 CCCTTTTCCG
* * *
682787 AAGCCCACAACTCCGTGGCAC-CATTTTTCTTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTC
1 AAGCCCACAACTCCGTGGCACTCTTTTTTCCTTTT-AAGCCCACAACTCCGTGGCACTCTTTTTC
682851 CTTTT
65 CTTTT
* *
682856 AAGCCCACAACTCTGTGGTACTCTTTTTTCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCC
1 AAGCCCACAACTCCGTGGCACTCTTTTTTCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCC
*
682921 TTCT
66 TTTT
* * * * *
682925 AAGTCCACGAGTCCGTGGCAC-C-TTTTT-CTTTTAAGCCCATAACTCTGTGGCACTCTTTTTCC
1 AAGCCCACAACTCCGTGGCACTCTTTTTTCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCC
682987 TTTT
66 TTTT
*
682991 AAGCCCACAACTCCGTGGCACTCTTTTTTCCTTTTATGCCCACAACTCCGTGGCACTCTTTTTCC
1 AAGCCCACAACTCCGTGGCACTCTTTTTTCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCC
*
683056 TTCT
66 TTTT
* ** * *
683060 AAGTCCATGACTCCGTGGCACT-TTTTTTCCTTTTAAGCCCACAACTCCATGGCACTTTTTTTTT
1 AAGCCCACAACTCCGTGGCACTCTTTTTTCCTTTTAAGCCCACAACTCCGTGGCAC--TCTTTTT
683124 CCTTTT
64 CCTTTT
* * * *
683130 AAGCCCACAACTCCATGGCACTC-TTTTTCCTTTTAAGTCCACAACTCCATGGCACCCTTTT
1 AAGCCCACAACTCCGTGGCACTCTTTTTTCCTTTTAAGCCCACAACTCCGTGGCACTCTTTT
683191 AAGCCCACAA
Statistics
Matches: 293, Mismatches: 35, Indels: 15
0.85 0.10 0.04
Matches are distributed among these distances:
66 54 0.18
67 6 0.02
68 41 0.14
69 121 0.41
70 71 0.24
ACGTcount: A:0.18, C:0.32, G:0.12, T:0.37
Consensus pattern (69 bp):
AAGCCCACAACTCCGTGGCACTCTTTTTTCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCC
TTTT
Found at i:682998 original size:135 final size:135
Alignment explanation
Indices: 682791--683190 Score: 595
Period size: 135 Copynumber: 2.9 Consensus size: 135
682781 TTTCCGAAGC
*
682791 CCACAACTCCGTGGCACCATTTTTCTTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTCCTTTT
1 CCACGACTCCGTGGCACC-TTTTTC-TTTT-AAGCCCACAACTCTGTGGCACTCTTTTTCCTTTT
* *
682856 AAGCCCACAACTCTGTGGTACTCTTTTTTCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCC
63 AAGCCCACAACTCCGTGGCACTCTTTTTTCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCC
682921 TTCTAAGT
128 TTCTAAGT
* *
682929 CCACGAGTCCGTGGCACCTTTTTCTTTTAAGCCCATAACTCTGTGGCACTCTTTTTCCTTTTAAG
1 CCACGACTCCGTGGCACCTTTTTCTTTTAAGCCCACAACTCTGTGGCACTCTTTTTCCTTTTAAG
*
682994 CCCACAACTCCGTGGCACTCTTTTTTCCTTTTATGCCCACAACTCCGTGGCACTCTTTTTCCTTC
66 CCCACAACTCCGTGGCACTCTTTTTTCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTC
683059 TAAGT
131 TAAGT
* * ** *
683064 CCATGACTCCGTGGCACTTTTTTTCCTTTTAAGCCCACAACTCCATGGCACTTTTTTTTTCCTTT
1 CCACGACTCCGTGGCAC-CTTTTT-CTTTTAAGCCCACAACTCTGTGGCAC--TCTTTTTCCTTT
* * * *
683129 TAAGCCCACAACTCCATGGCACTC-TTTTTCCTTTTAAGTCCACAACTCCATGGCACCCTTTT
62 TAAGCCCACAACTCCGTGGCACTCTTTTTTCCTTTTAAGCCCACAACTCCGTGGCACTCTTTT
683191 AAGCCCACAA
Statistics
Matches: 240, Mismatches: 18, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
135 118 0.49
136 9 0.04
137 29 0.12
138 50 0.21
139 34 0.14
ACGTcount: A:0.18, C:0.33, G:0.12, T:0.38
Consensus pattern (135 bp):
CCACGACTCCGTGGCACCTTTTTCTTTTAAGCCCACAACTCTGTGGCACTCTTTTTCCTTTTAAG
CCCACAACTCCGTGGCACTCTTTTTTCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTC
TAAGT
Found at i:683188 original size:27 final size:27
Alignment explanation
Indices: 683158--683213 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
683148 CACTCTTTTT
*
683158 CCTTTTAAGTCCACAACTCCA-TGGCAC
1 CCTTTTAAGCCCACAACT-CAGTGGCAC
*
683185 CCTTTTAAGCCCACAAGTCAGTGGCAC
1 CCTTTTAAGCCCACAACTCAGTGGCAC
683212 CC
1 CC
683214 CTTTCAAAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
26 2 0.08
27 24 0.92
ACGTcount: A:0.25, C:0.38, G:0.14, T:0.23
Consensus pattern (27 bp):
CCTTTTAAGCCCACAACTCAGTGGCAC
Found at i:683258 original size:28 final size:29
Alignment explanation
Indices: 683195--683259 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
683185 CCTTTTAAGC
*
683195 CCACAAGTCAGTGGCACCCCTTTCAAAA-
1 CCACAAGTCAGTGGCACACCTTTCAAAAG
683223 CCTACAAGTCAGTGGCA-ACC-TTCAAAAG
1 CC-ACAAGTCAGTGGCACACCTTTCAAAAG
683251 CACACAAGT
1 C-CACAAGT
683260 TGATGCAACC
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
27 7 0.21
28 11 0.33
29 15 0.45
ACGTcount: A:0.35, C:0.32, G:0.15, T:0.17
Consensus pattern (29 bp):
CCACAAGTCAGTGGCACACCTTTCAAAAG
Found at i:683562 original size:49 final size:47
Alignment explanation
Indices: 683402--683663 Score: 163
Period size: 49 Copynumber: 5.7 Consensus size: 47
683392 GCATAAGCCT
* * *
683402 AATATCGCTAGCCTTGAACCAGCATATTGGCACCTTTATCTTTAA-AGCC
1 AATATCGCTGGCCTTGAATCAGCATATTGGCACC--CATCTTTAAGA-CC
* *
683451 TAATATCGCTGGCCTTGAATCAGCATATT-G-A--CACCTTTAAGTCC
1 -AATATCGCTGGCCTTGAATCAGCATATTGGCACCCATCTTTAAGACC
* * *
683495 GATATCGTTGGCCATGAATCAGCATATTGGCACCGGCATCTTTAAGACC
1 AATATCGCTGGCCTTGAATCAGCATATTGGCACC--CATCTTTAAGACC
* * * * *
683544 AATGTTGCTGGCCTTGAATCAGCACATAGG----CA----TAAGCCC
1 AATATCGCTGGCCTTGAATCAGCATATTGGCACCCATCTTTAAGACC
* * * ** **
683583 AATATCGCTGGCTTTGAATCGGCGTATTGGCACCTTGTCTTTAAGTTC
1 AATATCGCTGGCCTTGAATCAGCATATTGGCACC-CATCTTTAAGACC
** *
683631 AATGCCGCTGGCCTTGAATCAGCACATTGGCAC
1 AATATCGCTGGCCTTGAATCAGCATATTGGCAC
683664 AAGTCCAATA
Statistics
Matches: 161, Mismatches: 35, Indels: 34
0.70 0.15 0.15
Matches are distributed among these distances:
39 29 0.18
43 27 0.17
44 10 0.06
45 1 0.01
48 33 0.20
49 35 0.22
50 26 0.16
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (47 bp):
AATATCGCTGGCCTTGAATCAGCATATTGGCACCCATCTTTAAGACC
Found at i:683645 original size:87 final size:86
Alignment explanation
Indices: 683307--683701 Score: 369
Period size: 88 Copynumber: 4.5 Consensus size: 86
683297 CGTCTTCCTC
* * ** * * * * *
683307 TAAGCCTAATATCGCTGGCCTTGAATTAGCACGTTGGCATCTTCATCTGTAAAACCAATGTTGCT
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-GTCT-TTAAGCCAATGTCGCT
683372 GGCCTTGAATCAGCACATTGGCA
64 GGCCTTGAATCAGCACATTGGCA
* * * * *
683395 TAAGCCTAATATCGCTAGCCTTGAACCAGCATATTGGCACCTTTATCTTTAAAGCCTAATATCGC
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TTGTCTTT-AAGCC-AATGTCGC
* *
683460 TGGCCTTGAATCAGCATATTGACA
63 TGGCCTTGAATCAGCACATTGGCA
* * * * *
683484 CCTTTAAGTCCGATATCGTTGGCCATGAATCAGCATATTGGCACC-GGCATCTTTAAGACCAATG
1 ----TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTG--TCTTTAAG-CCAATG
* *
683548 TTGCTGGCCTTGAATCAGCACATAGGCA
59 TCGCTGGCCTTGAATCAGCACATTGGCA
* * * * *
683576 TAAGCCCAATATCGCTGGCTTTGAATCGGCGTATTGGCACCTTGTCTTTAAGTTCAATGCCGCTG
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAG-CCAATGTCGCTG
683641 GCCTTGAATCAGCACATTGGCA
65 GCCTTGAATCAGCACATTGGCA
* * * * *
683663 CAAGTCCAATATCGTTAGCCGTGAATCAGCATATTGGCA
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCA
683702 TCTTTATCAC
Statistics
Matches: 249, Mismatches: 47, Indels: 23
0.78 0.15 0.07
Matches are distributed among these distances:
87 70 0.28
88 77 0.31
89 31 0.12
92 30 0.12
93 41 0.16
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (86 bp):
TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGCCAATGTCGCTGG
CCTTGAATCAGCACATTGGCA
Found at i:684579 original size:19 final size:18
Alignment explanation
Indices: 684554--684650 Score: 79
Period size: 19 Copynumber: 5.8 Consensus size: 18
684544 ATTTCAACGA
684554 TTTGTATCGATACATAAG
1 TTTGTATCGATACATAAG
684572 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
684588 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
*
684604 TTTTATATCGATAC--AA-
1 -TTTGTATCGATACATAAG
684620 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
*
684636 TTTTATATCGATACA
1 -TTTGTATCGATACA
684651 ATGTATCGAT
Statistics
Matches: 63, Mismatches: 3, Indels: 25
0.69 0.03 0.27
Matches are distributed among these distances:
13 21 0.33
15 4 0.06
17 4 0.06
18 1 0.02
19 33 0.52
ACGTcount: A:0.35, C:0.12, G:0.14, T:0.38
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:684592 original size:32 final size:32
Alignment explanation
Indices: 684556--684663 Score: 198
Period size: 32 Copynumber: 3.4 Consensus size: 32
684546 TTCAACGATT
* *
684556 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTTTTATATCGATACAA
684588 TGTATCGATACATAAGTTTTATATCGATACAA
1 TGTATCGATACATAAGTTTTATATCGATACAA
684620 TGTATCGATACATAAGTTTTATATCGATACAA
1 TGTATCGATACATAAGTTTTATATCGATACAA
684652 TGTATCGATACA
1 TGTATCGATACA
684664 ATGTACAGTT
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 74 1.00
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.36
Consensus pattern (32 bp):
TGTATCGATACATAAGTTTTATATCGATACAA
Found at i:684593 original size:13 final size:13
Alignment explanation
Indices: 684575--684668 Score: 62
Period size: 13 Copynumber: 6.3 Consensus size: 13
684565 ACATAAGTGT
684575 TGTATCGATACAA
1 TGTATCGATACAA
684588 TGTATCGATACATAA
1 TGTATCGATAC--AA
*
684603 GTTTTATATCGATACAA
1 ----TGTATCGATACAA
684620 TGTATCGATACATAA
1 TGTATCGATAC--AA
*
684635 GTTTTATATCGATACAA
1 ----TGTATCGATACAA
684652 TGTATCGATACAA
1 TGTATCGATACAA
684665 TGTA
1 TGTA
684669 CAGTTACGAA
Statistics
Matches: 65, Mismatches: 4, Indels: 24
0.70 0.04 0.26
Matches are distributed among these distances:
13 37 0.57
15 4 0.06
17 4 0.06
19 20 0.31
ACGTcount: A:0.37, C:0.13, G:0.14, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:684793 original size:52 final size:52
Alignment explanation
Indices: 684749--684877 Score: 240
Period size: 52 Copynumber: 2.5 Consensus size: 52
684739 CACTGATCTT
684749 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
* *
684801 TGTATCGATACATACAAGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
684853 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
684878 TCATATTTCG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 73 1.00
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
Found at i:690602 original size:19 final size:19
Alignment explanation
Indices: 690559--690631 Score: 85
Period size: 20 Copynumber: 3.7 Consensus size: 19
690549 CACATTCAGA
*
690559 TGTATCGATACAT-TATGCTT
1 TGTATCGATACATGT-T-CAT
690579 TGTATCGATACATGTTCAT
1 TGTATCGATACATGTTCAT
**
690598 TGTATCGATACATGGACAAT
1 TGTATCGATACATGTTC-AT
690618 TGTATCGATACATG
1 TGTATCGATACATG
690632 AAACTAGCAG
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
19 17 0.35
20 30 0.62
21 1 0.02
ACGTcount: A:0.29, C:0.15, G:0.18, T:0.38
Consensus pattern (19 bp):
TGTATCGATACATGTTCAT
Found at i:690706 original size:33 final size:32
Alignment explanation
Indices: 690660--690728 Score: 77
Period size: 33 Copynumber: 2.1 Consensus size: 32
690650 TTGCCACTAT
*
690660 TTGTATCGATACATG-GCACATTATATCGATACA
1 TTGTACCGATACATGAG-A-ATTATATCGATACA
* *
690693 TTGTACCGTTACATGATGAATTGTATCGATACA
1 TTGTACCGATACATGA-GAATTATATCGATACA
690726 TTG
1 TTG
690729 CTTCTAACGA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
33 29 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.30, C:0.16, G:0.17, T:0.36
Consensus pattern (32 bp):
TTGTACCGATACATGAGAATTATATCGATACA
Found at i:692283 original size:3 final size:3
Alignment explanation
Indices: 692275--692310 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
692265 TCAACCATCA
* *
692275 ATG ATG ATG AAG ATG ATA ATG ATG ATG ATG ATG ATG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
692311 GTGACTCGGA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.39, C:0.00, G:0.31, T:0.31
Consensus pattern (3 bp):
ATG
Found at i:694491 original size:32 final size:33
Alignment explanation
Indices: 694435--694497 Score: 110
Period size: 32 Copynumber: 1.9 Consensus size: 33
694425 CACCTAGATG
694435 TATCGATACATTGTGCTTTGTATCGATACATTT
1 TATCGATACATTGTGCTTTGTATCGATACATTT
*
694468 TATCGATACA-TGTTCTTTGTATCGATACAT
1 TATCGATACATTGTGCTTTGTATCGATACAT
694498 GGACAATTGT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 19 0.66
33 10 0.34
ACGTcount: A:0.25, C:0.16, G:0.14, T:0.44
Consensus pattern (33 bp):
TATCGATACATTGTGCTTTGTATCGATACATTT
Found at i:694584 original size:13 final size:13
Alignment explanation
Indices: 694563--694625 Score: 66
Period size: 13 Copynumber: 5.3 Consensus size: 13
694553 CGATACATGG
*
694563 TACATTGTATCGA
1 TACAATGTATCGA
694576 TACAATGTATCGA
1 TACAATGTATCGA
694589 TAC-ATG-AT-G-
1 TACAATGTATCGA
*
694598 -A-ATTGTATCGA
1 TACAATGTATCGA
694609 TACAATGTATCGA
1 TACAATGTATCGA
694622 TACA
1 TACA
694626 TGATGAATTG
Statistics
Matches: 41, Mismatches: 3, Indels: 12
0.73 0.05 0.21
Matches are distributed among these distances:
8 3 0.07
9 2 0.05
10 2 0.05
11 2 0.05
12 4 0.10
13 28 0.68
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.33
Consensus pattern (13 bp):
TACAATGTATCGA
Found at i:694590 original size:33 final size:33
Alignment explanation
Indices: 694548--694645 Score: 171
Period size: 33 Copynumber: 3.0 Consensus size: 33
694538 TACCACTGCT
*
694548 TGTATCGATACATGGT-ACATTGTATCGATACAA
1 TGTATCGATACATGATGA-ATTGTATCGATACAA
694581 TGTATCGATACATGATGAATTGTATCGATACAA
1 TGTATCGATACATGATGAATTGTATCGATACAA
694614 TGTATCGATACATGATGAATTGTATCGATACA
1 TGTATCGATACATGATGAATTGTATCGATACA
694646 TTACTTCTAA
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
33 62 0.98
34 1 0.02
ACGTcount: A:0.35, C:0.13, G:0.18, T:0.34
Consensus pattern (33 bp):
TGTATCGATACATGATGAATTGTATCGATACAA
Found at i:694606 original size:20 final size:20
Alignment explanation
Indices: 694581--694646 Score: 83
Period size: 20 Copynumber: 3.6 Consensus size: 20
694571 ATCGATACAA
694581 TGTATCGATACATGATGAAT
1 TGTATCGATACATGATGAAT
694601 TGTATCGATAC------AA-
1 TGTATCGATACATGATGAAT
694614 TGTATCGATACATGATGAAT
1 TGTATCGATACATGATGAAT
694634 TGTATCGATACAT
1 TGTATCGATACAT
694647 TACTTCTAAC
Statistics
Matches: 39, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
13 11 0.28
14 2 0.05
19 2 0.05
20 24 0.62
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (20 bp):
TGTATCGATACATGATGAAT
Found at i:696951 original size:13 final size:13
Alignment explanation
Indices: 696933--696958 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
696923 AATTTTTTGA
696933 TGTATCGATACAT
1 TGTATCGATACAT
696946 TGTATCGATACAT
1 TGTATCGATACAT
696959 ACTAGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:702010 original size:13 final size:13
Alignment explanation
Indices: 701992--702018 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
701982 ATTATATTCT
701992 TTGTATCGATACA
1 TTGTATCGATACA
702005 TTGTATCGATACA
1 TTGTATCGATACA
702018 T
1 T
702019 AGGTTACTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:704578 original size:83 final size:83
Alignment explanation
Indices: 704438--704602 Score: 231
Period size: 83 Copynumber: 2.0 Consensus size: 83
704428 AATACATTGG
* * * * *
704438 TATTTTTATCGATACATTTTGGTTGAATTAAGCTACAAAGGTCAAAACCTTTAAATGTCTCGATA
1 TATTTGTATCGATACATTATGGTTGAATTAAACTACAAAGGTCAAAACCCTTAAATGTATCGATA
*
704503 CACACTCAGATGCATCGT
66 CACACCCAGATGCATCGT
* * * *
704521 TATTTGTATCGATTCATTATGGTTGACTTAAACTACAAAGGTTAAAACCCTTGAATGTATCGATA
1 TATTTGTATCGATACATTATGGTTGAATTAAACTACAAAGGTCAAAACCCTTAAATGTATCGATA
*
704586 CACACCCAGATGTATCG
66 CACACCCAGATGCATCG
704603 ATACACACCC
Statistics
Matches: 71, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
83 71 1.00
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.34
Consensus pattern (83 bp):
TATTTGTATCGATACATTATGGTTGAATTAAACTACAAAGGTCAAAACCCTTAAATGTATCGATA
CACACCCAGATGCATCGT
Found at i:704600 original size:20 final size:20
Alignment explanation
Indices: 704575--704627 Score: 106
Period size: 20 Copynumber: 2.6 Consensus size: 20
704565 AAACCCTTGA
704575 ATGTATCGATACACACCCAG
1 ATGTATCGATACACACCCAG
704595 ATGTATCGATACACACCCAG
1 ATGTATCGATACACACCCAG
704615 ATGTATCGATACA
1 ATGTATCGATACA
704628 TTATGCTTTG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.36, C:0.26, G:0.15, T:0.23
Consensus pattern (20 bp):
ATGTATCGATACACACCCAG
Found at i:704659 original size:19 final size:19
Alignment explanation
Indices: 704616--704687 Score: 83
Period size: 20 Copynumber: 3.7 Consensus size: 19
704606 CACACCCAGA
*
704616 TGTATCGATACAT-TATGCTT
1 TGTATCGATACATGT-T-CAT
704636 TGTATCGATACATGTTCAT
1 TGTATCGATACATGTTCAT
**
704655 TGTATCGATACATGGACAGT
1 TGTATCGATACATGTTCA-T
704675 TGTATCGATACAT
1 TGTATCGATACAT
704688 AAAACTGGCA
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
19 18 0.38
20 28 0.60
21 1 0.02
ACGTcount: A:0.28, C:0.15, G:0.18, T:0.39
Consensus pattern (19 bp):
TGTATCGATACATGTTCAT
Found at i:708398 original size:20 final size:20
Alignment explanation
Indices: 708373--708419 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
708363 CGTTTTCACT
708373 TCAAAATACTTCATTTTTCA
1 TCAAAATACTTCATTTTTCA
708393 TCAAAATACTTCATTTTTCA
1 TCAAAATACTTCATTTTTCA
708413 TCAAAAT
1 TCAAAAT
708420 TATTAGCAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.38, C:0.19, G:0.00, T:0.43
Consensus pattern (20 bp):
TCAAAATACTTCATTTTTCA
Found at i:710197 original size:16 final size:17
Alignment explanation
Indices: 710167--710199 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
710157 ATTATCTAGG
*
710167 GGGAGAAATTTTTTTAA
1 GGGAGAAATTGTTTTAA
710184 GGGA-AAATTGTTTTAA
1 GGGAGAAATTGTTTTAA
710200 CGAGAGCCTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.36, C:0.00, G:0.24, T:0.39
Consensus pattern (17 bp):
GGGAGAAATTGTTTTAA
Found at i:710816 original size:19 final size:19
Alignment explanation
Indices: 710784--710840 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 19
710774 TTGTATCACA
** *
710784 CATTGTATTAATACATGTT
1 CATTGTATCGATACATGAT
710803 CATTGTATCGATACATGGAT
1 CATTGTATCGATACAT-GAT
*
710823 AATTGTATCGATACATGA
1 CATTGTATCGATACATGA
710841 AACTGGCAGT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
19 16 0.48
20 17 0.52
ACGTcount: A:0.33, C:0.12, G:0.16, T:0.39
Consensus pattern (19 bp):
CATTGTATCGATACATGAT
Found at i:710893 original size:20 final size:19
Alignment explanation
Indices: 710868--710921 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 19
710858 CTACCACTGT
710868 TTGTATCGATACATG-GCACA
1 TTGTATCGATACATGAG-A-A
*
710888 TTGTATCAATACATGATGAA
1 TTGTATCGATACATGA-GAA
710908 TTGTATCGATACAT
1 TTGTATCGATACAT
710922 TGCTTCTAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 28 0.93
21 1 0.03
22 1 0.03
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.35
Consensus pattern (19 bp):
TTGTATCGATACATGAGAA
Found at i:710980 original size:19 final size:20
Alignment explanation
Indices: 710956--710993 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
710946 ATAATTTCAA
710956 ATGAA-TGTATCGATACATT
1 ATGAATTGTATCGATACATT
710975 ATGAATTGTATCGATACAT
1 ATGAATTGTATCGATACAT
710994 AGCTACAGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.37
Consensus pattern (20 bp):
ATGAATTGTATCGATACATT
Found at i:714693 original size:13 final size:13
Alignment explanation
Indices: 714675--714705 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
714665 ACAATTCATC
*
714675 ATGTATTGATACA
1 ATGTATCGATACA
714688 ATGTATCGATACA
1 ATGTATCGATACA
714701 ATGTA
1 ATGTA
714706 CCATGTCTCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.39, C:0.10, G:0.16, T:0.35
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:714711 original size:33 final size:33
Alignment explanation
Indices: 714653--714721 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 33
714643 CCGTTACAAG
* *
714653 CAATGTATCGATACAATTCATCATGTATTGATA
1 CAATGTATCGATACAATTCACCATGTATCGATA
*
714686 CAATGTATCGATACAATGT-ACCATGTCTCGATA
1 CAATGTATCGATACAAT-TCACCATGTATCGATA
714719 CAA
1 CAA
714722 ACAGTGGTAG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
33 31 0.97
34 1 0.03
ACGTcount: A:0.36, C:0.19, G:0.13, T:0.32
Consensus pattern (33 bp):
CAATGTATCGATACAATTCACCATGTATCGATA
Found at i:714794 original size:19 final size:18
Alignment explanation
Indices: 714749--714806 Score: 71
Period size: 19 Copynumber: 3.1 Consensus size: 18
714739 ACTGCCAGCT
*
714749 TCATGTATCGATAGAATTG
1 TCATGTATCGATACAA-TG
714768 TCCATGTATCGATACAATG
1 T-CATGTATCGATACAATG
*
714787 ATCATGTATTGATACAATG
1 -TCATGTATCGATACAATG
714806 T
1 T
714807 ATCGATACGA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
18 1 0.03
19 19 0.54
20 15 0.43
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.36
Consensus pattern (18 bp):
TCATGTATCGATACAATG
Found at i:714832 original size:33 final size:32
Alignment explanation
Indices: 714771--714832 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 32
714761 AGAATTGTCC
*
714771 ATGTATCGATACAATGATCATGTATTGATACA
1 ATGTATCGATACAATGATAATGTATTGATACA
714803 ATGTATCGATACGAA-GCATAATGTATTGAT
1 ATGTATCGATAC-AATG-ATAATGTATTGAT
714833 GCATCTGGGT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
32 13 0.48
33 14 0.52
ACGTcount: A:0.37, C:0.11, G:0.18, T:0.34
Consensus pattern (32 bp):
ATGTATCGATACAATGATAATGTATTGATACA
Found at i:715443 original size:28 final size:28
Alignment explanation
Indices: 715410--715493 Score: 85
Period size: 28 Copynumber: 3.3 Consensus size: 28
715400 GTTAAAAAAA
715410 TTCTCCCCTTTAATCGGTTAAAGAGATT
1 TTCTCCCCTTTAATCGGTTAAAGAGATT
* * *
715438 TTCTCCCC-CT-A---GATAAA-A-A-A
1 TTCTCCCCTTTAATCGGTTAAAGAGATT
715458 TTCTCCCCTTTAATCGGTTAAAGAGATT
1 TTCTCCCCTTTAATCGGTTAAAGAGATT
715486 TTCTCCCC
1 TTCTCCCC
715494 CTAGATAAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 16
0.66 0.09 0.25
Matches are distributed among these distances:
20 8 0.19
21 2 0.05
22 2 0.05
23 5 0.12
25 5 0.12
26 2 0.05
27 2 0.05
28 16 0.38
ACGTcount: A:0.26, C:0.27, G:0.11, T:0.36
Consensus pattern (28 bp):
TTCTCCCCTTTAATCGGTTAAAGAGATT
Found at i:715474 original size:48 final size:48
Alignment explanation
Indices: 715404--715504 Score: 202
Period size: 48 Copynumber: 2.1 Consensus size: 48
715394 GCTTTCGTTA
715404 AAAAAATTCTCCCCTTTAATCGGTTAAAGAGATTTTCTCCCCCTAGAT
1 AAAAAATTCTCCCCTTTAATCGGTTAAAGAGATTTTCTCCCCCTAGAT
715452 AAAAAATTCTCCCCTTTAATCGGTTAAAGAGATTTTCTCCCCCTAGAT
1 AAAAAATTCTCCCCTTTAATCGGTTAAAGAGATTTTCTCCCCCTAGAT
715500 AAAAA
1 AAAAA
715505 TTTATTTTTC
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 53 1.00
ACGTcount: A:0.35, C:0.24, G:0.10, T:0.32
Consensus pattern (48 bp):
AAAAAATTCTCCCCTTTAATCGGTTAAAGAGATTTTCTCCCCCTAGAT
Found at i:721859 original size:9 final size:9
Alignment explanation
Indices: 721845--721878 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
721835 TCCGAGTCAC
721845 CATCATTAT
1 CATCATTAT
721854 CATCATTAT
1 CATCATTAT
721863 CATC-TTCAT
1 CATCATT-AT
721872 CATCATT
1 CATCATT
721879 GATGGTTGAC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 2 0.09
9 19 0.83
10 2 0.09
ACGTcount: A:0.29, C:0.26, G:0.00, T:0.44
Consensus pattern (9 bp):
CATCATTAT
Found at i:723503 original size:13 final size:13
Alignment explanation
Indices: 723485--723515 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
723475 ACAATTCATC
723485 ATGTATCGACACA
1 ATGTATCGACACA
*
723498 ATGTATCGATACA
1 ATGTATCGACACA
723511 ATGTA
1 ATGTA
723516 CCATGCATCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.29
Consensus pattern (13 bp):
ATGTATCGACACA
Found at i:723526 original size:33 final size:33
Alignment explanation
Indices: 723463--723531 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 33
723453 CCATTACAAG
* *
723463 CAATGTATCGATACAATTCATCATGTATCGACA
1 CAATGTATCGATACAATTCACCATGCATCGACA
*
723496 CAATGTATCGATACAATGT-ACCATGCATCGATA
1 CAATGTATCGATACAAT-TCACCATGCATCGACA
723529 CAA
1 CAA
723532 ACAGTGGTAG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
33 31 0.97
34 1 0.03
ACGTcount: A:0.38, C:0.22, G:0.13, T:0.28
Consensus pattern (33 bp):
CAATGTATCGATACAATTCACCATGCATCGACA
Found at i:723604 original size:19 final size:19
Alignment explanation
Indices: 723559--723612 Score: 83
Period size: 19 Copynumber: 2.8 Consensus size: 19
723549 ACTGCCAGTT
723559 TCATGTATCGATACAATTG
1 TCATGTATCGATACAATTG
723578 TCCATGTATCGATACAA-TG
1 T-CATGTATCGATACAATTG
723597 ATCATGTATCGATACA
1 -TCATGTATCGATACA
723613 TCTGGGTGTG
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
19 17 0.52
20 16 0.48
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.33
Consensus pattern (19 bp):
TCATGTATCGATACAATTG
Found at i:724288 original size:20 final size:20
Alignment explanation
Indices: 724265--724308 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
724255 TATTCATTCA
724265 TTTCCAT-AAATTTTGATTTT
1 TTTCCATGAAATTTT-ATTTT
* *
724285 TTTCCTTGAAATTTTCTTTT
1 TTTCCATGAAATTTTATTTT
724305 TTTC
1 TTTC
724309 GAAATACGGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 14 0.67
21 7 0.33
ACGTcount: A:0.18, C:0.14, G:0.05, T:0.64
Consensus pattern (20 bp):
TTTCCATGAAATTTTATTTT
Found at i:725125 original size:10 final size:10
Alignment explanation
Indices: 725110--725157 Score: 69
Period size: 10 Copynumber: 4.6 Consensus size: 10
725100 GCAGCAAGTG
725110 AGAAAAAAAA
1 AGAAAAAAAA
*
725120 AGAAAAAAAG
1 AGAAAAAAAA
725130 AGAAAAAAAA
1 AGAAAAAAAA
725140 AGAGAGAAAAAA
1 AGA-A-AAAAAA
725152 AGAAAA
1 AGAAAA
725158 TTCCAAGCAC
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
10 23 0.68
11 2 0.06
12 9 0.26
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (10 bp):
AGAAAAAAAA
Found at i:725137 original size:12 final size:12
Alignment explanation
Indices: 725122--725154 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
725112 AAAAAAAAAG
725122 AAAAAAAGAGAA
1 AAAAAAAGAGAA
*
725134 AAAAAAAGAGAG
1 AAAAAAAGAGAA
725146 AAAAAAAGA
1 AAAAAAAGA
725155 AAATTCCAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (12 bp):
AAAAAAAGAGAA
Found at i:725145 original size:14 final size:13
Alignment explanation
Indices: 725122--725152 Score: 53
Period size: 14 Copynumber: 2.3 Consensus size: 13
725112 AAAAAAAAAG
725122 AAAAAAAGAGAAA
1 AAAAAAAGAGAAA
725135 AAAAAAGAGAGAAA
1 AAAAAA-AGAGAAA
725149 AAAA
1 AAAA
725153 GAAAATTCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.35
14 11 0.65
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (13 bp):
AAAAAAAGAGAAA
Found at i:731047 original size:13 final size:13
Alignment explanation
Indices: 731029--731054 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
731019 ACATTTTATG
731029 ATGTATCGATACA
1 ATGTATCGATACA
731042 ATGTATCGATACA
1 ATGTATCGATACA
731055 TACTGTGTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:731151 original size:20 final size:21
Alignment explanation
Indices: 731104--731154 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 21
731094 GCCAATGACT
**
731104 TGTATCGATACATTCTTTTCA
1 TGTATCGATACATTCTGGTCA
*
731125 AGTATCGATACATT-TGGTCA
1 TGTATCGATACATTCTGGTCA
731145 TGTATCGATA
1 TGTATCGATA
731155 TAATGTATCG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
20 13 0.50
21 13 0.50
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.41
Consensus pattern (21 bp):
TGTATCGATACATTCTGGTCA
Found at i:731182 original size:20 final size:20
Alignment explanation
Indices: 731157--731208 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
731147 TATCGATATA
*
731157 ATGTATCGATACAATGCAAT
1 ATGTATCGATACAATGAAAT
* *
731177 ATGTATCGATACATTTAAAT
1 ATGTATCGATACAATGAAAT
*
731197 GTGTATCGATAC
1 ATGTATCGATAC
731209 CTTTTAGGGT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.35
Consensus pattern (20 bp):
ATGTATCGATACAATGAAAT
Found at i:731750 original size:21 final size:21
Alignment explanation
Indices: 731724--731776 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
731714 TTTTCTTTTC
731724 TCTCCCCCTTAATCAAAAATT
1 TCTCCCCCTTAATCAAAAATT
**
731745 TCTCCCCCTTAATCAAACGTT
1 TCTCCCCCTTAATCAAAAATT
731766 TCTCCCCCTTA
1 TCTCCCCCTTA
731777 GTAAAATAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.25, C:0.40, G:0.02, T:0.34
Consensus pattern (21 bp):
TCTCCCCCTTAATCAAAAATT
Found at i:731862 original size:25 final size:26
Alignment explanation
Indices: 731809--731863 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 26
731799 CACATTAACC
* *
731809 ATTTCTTTCTCCCCCTTAATTATAAA
1 ATTTCTTTCTCCCCCTTAAGTAAAAA
731835 ATTT-TTTCTCCCCCTT-AGTAAAATA
1 ATTTCTTTCTCCCCCTTAAGTAAAA-A
731860 ATTT
1 ATTT
731864 AACACTTTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
24 5 0.19
25 17 0.65
26 4 0.15
ACGTcount: A:0.27, C:0.24, G:0.02, T:0.47
Consensus pattern (26 bp):
ATTTCTTTCTCCCCCTTAAGTAAAAA
Found at i:731862 original size:75 final size:75
Alignment explanation
Indices: 731764--731913 Score: 291
Period size: 75 Copynumber: 2.0 Consensus size: 75
731754 TAATCAAACG
*
731764 TTTCTCCCCCTTAGTAAAATAATTTAACACTTTCGCACATTAACCATTTCTTTCTCCCCCTTAAT
1 TTTCTCCCCCTTAGTAAAATAATTTAACACTTTCACACATTAACCATTTCTTTCTCCCCCTTAAT
731829 TATAAAATTT
66 TATAAAATTT
731839 TTTCTCCCCCTTAGTAAAATAATTTAACACTTTCACACATTAACCATTTCTTTCTCCCCCTTAAT
1 TTTCTCCCCCTTAGTAAAATAATTTAACACTTTCACACATTAACCATTTCTTTCTCCCCCTTAAT
731904 TATAAAATTT
66 TATAAAATTT
731914 ATTTACAAAG
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
75 74 1.00
ACGTcount: A:0.30, C:0.27, G:0.02, T:0.41
Consensus pattern (75 bp):
TTTCTCCCCCTTAGTAAAATAATTTAACACTTTCACACATTAACCATTTCTTTCTCCCCCTTAAT
TATAAAATTT
Found at i:733260 original size:21 final size:21
Alignment explanation
Indices: 733231--733280 Score: 57
Period size: 20 Copynumber: 2.3 Consensus size: 21
733221 TGCTAGTGTG
*
733231 GGGGCTGCCCGGTTGCGACCTA
1 GGGG-TGCCCGGTCGCGACCTA
*
733253 GGGGTG-CCGGTCGCGACCTG
1 GGGGTGCCCGGTCGCGACCTA
733273 GTGGGTGC
1 G-GGGTGC
733281 TGCCTAGGAG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
20 13 0.54
21 7 0.29
22 4 0.17
ACGTcount: A:0.06, C:0.28, G:0.48, T:0.18
Consensus pattern (21 bp):
GGGGTGCCCGGTCGCGACCTA
Found at i:739997 original size:20 final size:21
Alignment explanation
Indices: 739950--740002 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
739940 GCCAATGACT
**
739950 TGTATCGATACATTCTTTTCA
1 TGTATCGATACATTCTGGTCA
*
739971 AGTATCGATACATT-TGGTCA
1 TGTATCGATACATTCTGGTCA
739991 TGTATCGATACA
1 TGTATCGATACA
740003 ATGTATCGAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 15 0.54
21 13 0.46
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (21 bp):
TGTATCGATACATTCTGGTCA
Found at i:740008 original size:13 final size:13
Alignment explanation
Indices: 739990--740018 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
739980 ACATTTGGTC
739990 ATGTATCGATACA
1 ATGTATCGATACA
740003 ATGTATCGATACA
1 ATGTATCGATACA
740016 ATG
1 ATG
740019 CAATCTGTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:740029 original size:20 final size:20
Alignment explanation
Indices: 740004--740054 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
739994 ATCGATACAA
*
740004 TGTATCGATACAATGCAATC
1 TGTATCGATACAATGAAATC
* * *
740024 TGTATCGATACATTTAAATG
1 TGTATCGATACAATGAAATC
740044 TGTATCGATAC
1 TGTATCGATAC
740055 TTTTCAGGGT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (20 bp):
TGTATCGATACAATGAAATC
Found at i:741141 original size:13 final size:13
Alignment explanation
Indices: 741123--741149 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
741113 ACATTATGTT
741123 TTGTATCGATACA
1 TTGTATCGATACA
741136 TTGTATCGATACA
1 TTGTATCGATACA
741149 T
1 T
741150 GTTCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:741179 original size:20 final size:19
Alignment explanation
Indices: 741133--741189 Score: 87
Period size: 19 Copynumber: 2.9 Consensus size: 19
741123 TTGTATCGAT
*
741133 ACATTGTATCGATACATGT
1 ACATTGTATCGATACATGG
*
741152 TCATTGTATCGATACATGG
1 ACATTGTATCGATACATGG
741171 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
741190 AAACTGCTAG
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 18 0.53
20 16 0.47
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.35
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:741252 original size:13 final size:13
Alignment explanation
Indices: 741234--741264 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
741224 CGATACATGG
741234 TACATTGTATCGA
1 TACATTGTATCGA
741247 TACATTGTATCGA
1 TACATTGTATCGA
741260 TACAT
1 TACAT
741265 GATGAATTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.39
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:741265 original size:33 final size:33
Alignment explanation
Indices: 741218--741286 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 33
741208 CTACCACTGT
* *
741218 TTGTGTCGATACATGGT-ACATTGTATCGATACA
1 TTGTATCGATACATGATGA-ATTGTATCGATACA
*
741251 TTGTATCGATACATGATGAATTGTATCGATATA
1 TTGTATCGATACATGATGAATTGTATCGATACA
741284 TTG
1 TTG
741287 CTTTAACAAC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
33 31 0.97
34 1 0.03
ACGTcount: A:0.29, C:0.12, G:0.20, T:0.39
Consensus pattern (33 bp):
TTGTATCGATACATGATGAATTGTATCGATACA
Found at i:743430 original size:824 final size:823
Alignment explanation
Indices: 741844--743488 Score: 2413
Period size: 824 Copynumber: 2.0 Consensus size: 823
741834 GACAAGGAAG
* * *
741844 TGTCGAGGAGAGAGGACGTAGGTACCAGTTTGGACTGAACCCCTATAAACTCTTGTGTCGATCAT
1 TGTCGAGGAGAGAGGACGTAGGTACCAGATTGGACCGAACCCCTATAAACTCTTGTGTCGAGCAT
* * * *
741909 TTCTTCCTGAATCTTTTTATCTTTTGAATTATTTTGCACTAAACCTTTCAAAATTATCGAAATTC
66 TTCTTCCTGAATCTTTTTATCTTTCGAATTATTTTGCACCAAACCTTTCAAAATCATCAAAATTC
* * *
741974 GAAATGAACCAATTCACCCCCCTCTTGGTTCATTATTCCTTGAGCTTTCAATTGGTATCAGAGCC
131 GAAAAGAACCAATTCACCCCCCTCTTAGTTCATTATTCCTTAAGCTTTCAATTGGTATCAGAGCC
* * *
742039 TAACCTCCTTCAACAGATTTACACCTGAGAGAGACGATCTTCTTCAGCTTAAGAATGGAAAGCGC
196 TAACCTCCTTCAACAGATTCACACCAGAGAGAGACGATCTTCTTCAGCTCAAGAATGGAAAGCGC
* ** *
742104 ATCAATGATCAAAGTTTCACAATTGCCAAACCAAGAAGAAATGTGTTTTATGGCATTGGAAAATA
261 AACAATGATCAAAGTTTCACAATTGCCAAACCAAGAAGAAATGTGCCTTATGGCATTAGAAAATA
* *
742169 ATTCAAGCGCCATCGGACTCGAAGGTCACTCAACCATGAGGCCTCCATACTTCAACGAGGACAAC
326 ATTCAAACGCCATCGGACTCGAAGGTCACTCAACCATGAGACCTCCATACTTCAACGAGGACAAC
* * *
742234 TTCTCATATTGGAAAACATGAATGAGGTTGTTTATCCAAGATAATGATTATGAAGTATGGAAAAT
391 TACTCATATTGGAAAACAAGAATGAGGTTGTTTATCCAAGACAATGATTATGAAGTATGGAAAAT
* * * * *
742299 TATCGTTAATGGACCTCGTATTCCCTTGATATTGGTCGACAGCACTCCTATGCCTAAAAGAGAAG
456 TATCGTAAATGGACCTCATATTCCATTGATATTAGTCGACAGCACTCCTATGCCGAAAAGAGAAG
* * *
742364 AAGAGTGGGAGGAACACGACACAAAAATGGCACAACTCAATGCTAAAGCAATGCACACGTTGTTT
521 AAGAATGGGAGGAACACGACACAAAAATGGCACAACTCAATGCTAAAACAATGCACACATTGTTT
* * * * *
742429 TGTGCTCTCGAGCCAAATGAGTACAATCATGTTTTACTTTGCAACAACGCCACGCAAATATAGGA
586 TGTGCTCTCGAGCAAAATAAGTACAATCATGTTTCACTTTGCAACAACACCAAGCAAATATAGGA
*
742494 CAAGCTCACAACAACACACGAGGGTACAAACCAAGTTAAAGAATCCAAAATCAACATGCTCACCC
651 CAAGCTCACAACAACACACGAGGGTACAAACCAAGTCAAAGAATCCAAAATCAACATGCTCACCC
* *
742559 TTGATTATGAGCTCTTTAAAATGAAAACCGATGAAAACATTAAGGAGATATCCGATCGGTTTACC
716 TTGATTATGAGCTCTTTAAAATGAAAACCGATGAAAACATCAAGGAGATATCCGATCGATTTACC
* * * *
742624 GACATTATCAACGGGCTTAAAGCATTGGGGAAGACTTATCCCA
781 GACATCATCAACGAGCTTAAAGCACTCGGGAAGACTTATCCCA
* * * *
742667 TGTCGAGGAGAGAGGACGTAGGTACTAGATTGGTCCGAACCTCTATAAACTCTTGTGTTGAGCAT
1 TGTCGAGGAGAGAGGACGTAGGTACCAGATTGGACCGAACCCCTATAAACTCTTGTGTCGAGCAT
* * * *
742732 TTCTTCTTTAATCTTTTTATCTTTCGAATTGTTTTGCACCAAATCTTTCAAAA-CACTCAAAATT
66 TTCTTCCTGAATCTTTTTATCTTTCGAATTATTTTGCACCAAACCTTTCAAAATCA-TCAAAATT
* *
742796 CGAAAAGAACCAATTCACCCCCCTCTTAGTTTATTATTCCTTAAGCTTTCCATTGGTATCAGAGC
130 CGAAAAGAACCAATTCACCCCCCTCTTAGTTCATTATTCCTTAAGCTTTCAATTGGTATCAGAGC
742861 CTAACCTCCTTTCAAC-GAATTCACACCCAG-GAGAGACGATCTTCTTCAGCTCAAGAATGGAAA
195 CTAACCTCC-TTCAACAG-ATTCACA-CCAGAGAGAGACGATCTTCTTCAGCTCAAGAATGGAAA
* ** *
742924 GCGCAACAATGGTCAAAGTTTCACAATTGCTGAACCAAGAAGAAATGTGCCTTATGGCGTTAGAA
257 GCGCAACAATGATCAAAGTTTCACAATTGCCAAACCAAGAAGAAATGTGCCTTATGGCATTAGAA
* *
742989 AATAATTCAAATGCCATCGGACTCGAAGGTCACTCAACCATGAGACCTCCATACTTCGACGAGGA
322 AATAATTCAAACGCCATCGGACTCGAAGGTCACTCAACCATGAGACCTCCATACTTCAACGAGGA
* * *
743054 CAACTACTCATATTGGAGAACAAGAATGGGGTTGTTTATTCAA-ACCAATGATTATGAAGTATGG
387 CAACTACTCATATTGGAAAACAAGAATGAGGTTGTTTATCCAAGA-CAATGATTATGAAGTATGG
* * *
743118 AAGATTATCGTAAATGGACCTCATATTCCATTGATATTAGTCGATAGCACT-CTCGTGCCCGAAA
451 AAAATTATCGTAAATGGACCTCATATTCCATTGATATTAGTCGACAGCACTCCT-ATG-CCGAAA
* * * *
743182 AG-GAAGAAGAATGGGATGAACACGACACGAATATGGCACAACTCAATGCTAAAATAATGCACAC
514 AGAGAAGAAGAATGGGAGGAACACGACACAAAAATGGCACAACTCAATGCTAAAACAATGCACAC
* * ** *
743246 ATTGTTTTGTGCTCTCGGGCAAAATAAGTATAATTGTGTTTCACTTTGCGACAACACCAAGCAAA
579 ATTGTTTTGTGCTCTCGAGCAAAATAAGTACAATCATGTTTCACTTTGCAACAACACCAAGCAAA
* * ** * *
743311 TATGGGATAAGCTTGCAACAACACATGAGGGTACAAACCAAGTCAAAGAATCCAAAATCAGCATG
644 TATAGGACAAGCTCACAACAACACACGAGGGTACAAACCAAGTCAAAGAATCCAAAATCAACATG
* * *
743376 CTCACCCTTGATTATGAGCT-TTTCAAAATGAGAATCGATGAAAACATCAAGGAGATGTCCGATC
709 CTCACCCTTGATTATGAGCTCTTT-AAAATGAAAACCGATGAAAACATCAAGGAGATATCCGATC
* *
743440 GATTTATCGACATCGTCAACGAGCTTAAAGCACTCGGGAAGACTTATCC
773 GATTTACCGACATCATCAACGAGCTTAAAGCACTCGGGAAGACTTATCC
743489 AAACAAAGAG
Statistics
Matches: 730, Mismatches: 84, Indels: 15
0.88 0.10 0.02
Matches are distributed among these distances:
822 1 0.00
823 188 0.26
824 531 0.73
825 10 0.01
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.27
Consensus pattern (823 bp):
TGTCGAGGAGAGAGGACGTAGGTACCAGATTGGACCGAACCCCTATAAACTCTTGTGTCGAGCAT
TTCTTCCTGAATCTTTTTATCTTTCGAATTATTTTGCACCAAACCTTTCAAAATCATCAAAATTC
GAAAAGAACCAATTCACCCCCCTCTTAGTTCATTATTCCTTAAGCTTTCAATTGGTATCAGAGCC
TAACCTCCTTCAACAGATTCACACCAGAGAGAGACGATCTTCTTCAGCTCAAGAATGGAAAGCGC
AACAATGATCAAAGTTTCACAATTGCCAAACCAAGAAGAAATGTGCCTTATGGCATTAGAAAATA
ATTCAAACGCCATCGGACTCGAAGGTCACTCAACCATGAGACCTCCATACTTCAACGAGGACAAC
TACTCATATTGGAAAACAAGAATGAGGTTGTTTATCCAAGACAATGATTATGAAGTATGGAAAAT
TATCGTAAATGGACCTCATATTCCATTGATATTAGTCGACAGCACTCCTATGCCGAAAAGAGAAG
AAGAATGGGAGGAACACGACACAAAAATGGCACAACTCAATGCTAAAACAATGCACACATTGTTT
TGTGCTCTCGAGCAAAATAAGTACAATCATGTTTCACTTTGCAACAACACCAAGCAAATATAGGA
CAAGCTCACAACAACACACGAGGGTACAAACCAAGTCAAAGAATCCAAAATCAACATGCTCACCC
TTGATTATGAGCTCTTTAAAATGAAAACCGATGAAAACATCAAGGAGATATCCGATCGATTTACC
GACATCATCAACGAGCTTAAAGCACTCGGGAAGACTTATCCCA
Found at i:750799 original size:13 final size:13
Alignment explanation
Indices: 750781--750807 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
750771 ATATTATGCT
750781 TTGTATCGATACA
1 TTGTATCGATACA
750794 TTGTATCGATACA
1 TTGTATCGATACA
750807 T
1 T
750808 GTTCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:750816 original size:19 final size:21
Alignment explanation
Indices: 750792--750847 Score: 82
Period size: 19 Copynumber: 2.8 Consensus size: 21
750782 TGTATCGATA
750792 CATTGTATCGATACATGT-T-
1 CATTGTATCGATACATGTATG
750811 CATTGTATCGATACAT-TATG
1 CATTGTATCGATACATGTATG
*
750831 AATTGTATCGATACATG
1 CATTGTATCGATACATG
750848 AAACTGGCAA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
18 1 0.03
19 17 0.52
20 15 0.45
ACGTcount: A:0.30, C:0.14, G:0.16, T:0.39
Consensus pattern (21 bp):
CATTGTATCGATACATGTATG
Found at i:750909 original size:20 final size:20
Alignment explanation
Indices: 750884--750929 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
750874 GTTTGTATCG
750884 ATACATGAT-ACATTGCATCA
1 ATACATGATGA-ATTGCATCA
*
750904 ATACATGATGAATTGTATCA
1 ATACATGATGAATTGCATCA
750924 ATACAT
1 ATACAT
750930 TGCTTCTAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 23 0.96
21 1 0.04
ACGTcount: A:0.41, C:0.15, G:0.11, T:0.33
Consensus pattern (20 bp):
ATACATGATGAATTGCATCA
Found at i:751919 original size:21 final size:22
Alignment explanation
Indices: 751893--751934 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
751883 GTCTTTACAA
751893 ATGTAT-TCATACATT-CATACT
1 ATGTATAT-ATACATTACATACT
751914 ATGTATATATACATTACATAC
1 ATGTATATATACATTACATAC
751935 ATCATATGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.38, C:0.17, G:0.05, T:0.40
Consensus pattern (22 bp):
ATGTATATATACATTACATACT
Found at i:757904 original size:16 final size:16
Alignment explanation
Indices: 757883--757914 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
757873 AAAGAAAAAG
757883 TAATTTCAATCTAGAT
1 TAATTTCAATCTAGAT
757899 TAATTTCAATCTAGAT
1 TAATTTCAATCTAGAT
757915 AATATAGACA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.12, G:0.06, T:0.44
Consensus pattern (16 bp):
TAATTTCAATCTAGAT
Found at i:758325 original size:49 final size:49
Alignment explanation
Indices: 758202--758334 Score: 189
Period size: 50 Copynumber: 2.7 Consensus size: 49
758192 TTTCACAATT
* *
758202 TGTATCGATACA-TCCTTCATTATATCGATACATTCTGGGTTTTACCCAAA
1 TGTATCGATACATTTC-TCATTGTATCGATACATTCTGGGTTTTACCC-AA
*
758252 TGTATCGATACATTTTTCATTGTATCGATACATTCTGGGTTTTAACCC-A
1 TGTATCGATACATTTCTCATTGTATCGATACATTCTGGGTTTT-ACCCAA
*
758301 TGTATCGATACATTTCTCAATGTATCGATACATT
1 TGTATCGATACATTTCTCATTGTATCGATACATT
758335 TAGGCATTTT
Statistics
Matches: 76, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
49 33 0.43
50 38 0.50
51 5 0.07
ACGTcount: A:0.27, C:0.20, G:0.13, T:0.41
Consensus pattern (49 bp):
TGTATCGATACATTTCTCATTGTATCGATACATTCTGGGTTTTACCCAA
Found at i:760864 original size:51 final size:51
Alignment explanation
Indices: 760748--760864 Score: 139
Period size: 51 Copynumber: 2.3 Consensus size: 51
760738 ATTTTTGAGA
* ** **
760748 GGATACTCCAACCCCACCTTTATTTCTAAAACATTGATTTTCCATAATCAG
1 GGATACTCCAACCCTAGTTTTATTTCTAAAACATCAATTTTCCATAATCAG
* *
760799 GGATACTCCAACCCTAGTTTTATTT-TCAAAACATCAATTTTTCATAATCGG
1 GGATACTCCAACCCTAGTTTTATTTCT-AAAACATCAATTTTCCATAATCAG
760850 GGATAC-CTCAACCCT
1 GGATACTC-CAACCCT
760865 GTTATTTTCG
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
50 2 0.04
51 55 0.96
ACGTcount: A:0.31, C:0.26, G:0.09, T:0.33
Consensus pattern (51 bp):
GGATACTCCAACCCTAGTTTTATTTCTAAAACATCAATTTTCCATAATCAG
Found at i:760928 original size:78 final size:77
Alignment explanation
Indices: 760798--761194 Score: 375
Period size: 79 Copynumber: 5.0 Consensus size: 77
760788 TCCATAATCA
* *
760798 GGGATACTCCAACCCTAGTTTTATTT-TCAAAACATCAATTTTTCATAATCGGGGATACCTCAAC
1 GGGATACTCCAACCC-GGTTTTATTTCT-AAAACATCAATTTTCCATAATCGGGGATA-CTCAAC
*
760862 CCTGTTATTTTCGAG
63 CCTGTTATTTTTGAG
** * *
760877 GGGATACTCCAACCCGGCCTTATTTCTAAAACATCAATTTTCCATAATCGGGGCTACTCTAGCCC
1 GGGATACTCCAACCCGGTTTTATTTCTAAAACATCAATTTTCCATAATCGGGGATACTC-AACCC
760942 TGTTATTTTTGAG
65 TGTTATTTTTGAG
* * * * * * **
760955 GAGATACTCCAACTCTGATTTTATTTCCAAAACACCTATTTTCCACCATCGGGGATACTCCAACC
1 GGGATACTCCAAC-CCGGTTTTATTTCTAAAACATCAATTTTCCATAATCGGGGATACT-CAACC
* *
761020 CCGTTATTTTCGAG
64 CTGTTATTTTTGAG
* * * ** *
761034 GAGATATTCAAACCCCGGTTTTATTTCTAAAACATTGATTTTCCATAATCAGGGATACTCCAACC
1 GGGATACTCCAA-CCCGGTTTTATTTCTAAAACATCAATTTTCCATAATCGGGGATACT-CAACC
* *
761099 CTTGTTTTTTTTGAA
64 C-TGTTATTTTTGAG
* * * * ** *
761114 GGGATACTCTAACTCCAGTTTTATTT-TCAAAACATCGATTTTTCACCATTGGGGATACTCTAAC
1 GGGATACTCCAAC-CCGGTTTTATTTCT-AAAACATCAATTTTCCATAATCGGGGATACTC-AAC
*
761178 CCTATTATTTTTGAG
63 CCTGTTATTTTTGAG
761193 GG
1 GG
761195 AGTACTCTGA
Statistics
Matches: 260, Mismatches: 49, Indels: 18
0.80 0.15 0.06
Matches are distributed among these distances:
77 3 0.01
78 62 0.24
79 134 0.52
80 61 0.23
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.36
Consensus pattern (77 bp):
GGGATACTCCAACCCGGTTTTATTTCTAAAACATCAATTTTCCATAATCGGGGATACTCAACCCT
GTTATTTTTGAG
Found at i:761108 original size:157 final size:157
Alignment explanation
Indices: 760797--761201 Score: 485
Period size: 159 Copynumber: 2.6 Consensus size: 157
760787 TTCCATAATC
* **
760797 AGGGATACTCCAACCCTAGTTTTATTTTCAAAACATCAATTTTTCATAATCGGGGATAC-CTCAA
1 AGGGATACTCCAACTCTAGTTTTATTTTCAAAACATCAATTTTTCACCATCGGGGATACTC-CAA
* *
760861 CCCTGTTATTTTCGAGGGGATACTCCAACCCGGCCTTATTTCTAAAACATCAATTTTCCATAATC
65 CCCTGTTATTTTCGAGGAGATACTCAAACCCGGCCTTATTTCTAAAACATCAATTTTCCATAATC
* * * *
760926 GGGGCTACTCTAGCCCTGTTATTTTTG-
130 AGGGATACTCCAACCCTGTTATTTTTGA
* * * *
760953 AGGAGATACTCCAACTCT-GATTTTATTTCCAAAACACCTATTTTCCACCATCGGGGATACTCCA
1 AGG-GATACTCCAACTCTAG-TTTTATTTTCAAAACATCAATTTTTCACCATCGGGGATACTCCA
* * ** **
761017 ACCCCGTTATTTTCGAGGAGATATTCAAACCCCGGTTTTATTTCTAAAACATTGATTTTCCATAA
64 ACCCTGTTATTTTCGAGGAGATACTCAAA-CCCGGCCTTATTTCTAAAACATCAATTTTCCATAA
*
761082 TCAGGGATACTCCAACCCTTGTTTTTTTTGA
128 TCAGGGATACTCCAACCC-TGTTATTTTTGA
* * * * *
761113 AGGGATACTCTAACTCCAGTTTTATTTTCAAAACATCGATTTTTCACCATTGGGGATACTCTAAC
1 AGGGATACTCCAACTCTAGTTTTATTTTCAAAACATCAATTTTTCACCATCGGGGATACTCCAAC
* *
761178 CCTATTATTTTTGAGG-GAGTACTC
66 CCTGTTATTTTCGAGGAGA-TACTC
761202 TGACCCCGTT
Statistics
Matches: 209, Mismatches: 32, Indels: 13
0.82 0.13 0.05
Matches are distributed among these distances:
156 4 0.02
157 74 0.35
158 48 0.23
159 79 0.38
160 4 0.02
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.35
Consensus pattern (157 bp):
AGGGATACTCCAACTCTAGTTTTATTTTCAAAACATCAATTTTTCACCATCGGGGATACTCCAAC
CCTGTTATTTTCGAGGAGATACTCAAACCCGGCCTTATTTCTAAAACATCAATTTTCCATAATCA
GGGATACTCCAACCCTGTTATTTTTGA
Found at i:761134 original size:29 final size:30
Alignment explanation
Indices: 761084--761140 Score: 73
Period size: 29 Copynumber: 1.9 Consensus size: 30
761074 TTCCATAATC
*
761084 AGGGATACTCCAACCCTTGTTTT-TTTTGA
1 AGGGATACTCCAACCCTAGTTTTATTTTGA
*
761113 AGGGATACTCTAACTCC-AGTTTTATTTT
1 AGGGATACTCCAAC-CCTAGTTTTATTTT
761141 CAAAACATCG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 18 0.75
30 6 0.25
ACGTcount: A:0.23, C:0.19, G:0.16, T:0.42
Consensus pattern (30 bp):
AGGGATACTCCAACCCTAGTTTTATTTTGA
Found at i:762644 original size:32 final size:33
Alignment explanation
Indices: 762582--762650 Score: 104
Period size: 32 Copynumber: 2.1 Consensus size: 33
762572 TTCAACGATT
*
762582 TGTATCGATACATAAAGTGTTGTATTGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
* *
762615 TGTATCGATATAT-AAGTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
762647 TGTA
1 TGTA
762651 AGCTACTGCC
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 21 0.64
33 12 0.36
ACGTcount: A:0.35, C:0.09, G:0.17, T:0.39
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:762706 original size:13 final size:13
Alignment explanation
Indices: 762688--762712 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
762678 ATTACTCAAA
762688 TGTATCGATACAT
1 TGTATCGATACAT
762701 TGTATCGATACA
1 TGTATCGATACA
762713 CTAATTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:762765 original size:52 final size:52
Alignment explanation
Indices: 762721--762849 Score: 249
Period size: 52 Copynumber: 2.5 Consensus size: 52
762711 CACTAATTTT
762721 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
762773 TGTATCGCTACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
762825 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
762850 TCATATTTCG
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 75 1.00
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:776737 original size:6 final size:6
Alignment explanation
Indices: 776719--776810 Score: 73
Period size: 6 Copynumber: 14.5 Consensus size: 6
776709 AAAACCAAAT
776719 AAACAA AAA-AA AAACAA AAACAAA AAACAAAA AAACAAA AAACAA AAA-AA
1 AAACAA AAACAA AAACAA AAAC-AA AAAC--AA AAAC-AA AAACAA AAACAA
* *
776769 CAAAGCAA AAA-AA AAACAA AATAAAA ACAACAA CAACAA AAA
1 -AAA-CAA AAACAA AAACAA AA-ACAA A-AACAA AAACAA AAA
776811 GGGTCCGGAT
Statistics
Matches: 73, Mismatches: 4, Indels: 18
0.77 0.04 0.19
Matches are distributed among these distances:
5 12 0.16
6 28 0.38
7 23 0.32
8 10 0.14
ACGTcount: A:0.84, C:0.14, G:0.01, T:0.01
Consensus pattern (6 bp):
AAACAA
Found at i:776737 original size:8 final size:8
Alignment explanation
Indices: 776706--776789 Score: 93
Period size: 8 Copynumber: 10.5 Consensus size: 8
776696 CCTCCACCAA
776706 AAAAAAACC
1 AAAAAAA-C
*
776715 AAATAAAC
1 AAAAAAAC
*
776723 AAAAAAAA
1 AAAAAAAC
776731 AACAAAAAC
1 AA-AAAAAC
776740 -AAAAAAC
1 AAAAAAAC
776747 AAAAAAAC
1 AAAAAAAC
776755 -AAAAAAC
1 AAAAAAAC
776762 AAAAAAAC
1 AAAAAAAC
*
776770 AAAGCAAA-
1 AAA-AAAAC
776778 AAAAAAAC
1 AAAAAAAC
776786 AAAA
1 AAAA
776790 TAAAAACAAC
Statistics
Matches: 64, Mismatches: 6, Indels: 11
0.79 0.07 0.14
Matches are distributed among these distances:
7 16 0.25
8 34 0.53
9 14 0.22
ACGTcount: A:0.85, C:0.13, G:0.01, T:0.01
Consensus pattern (8 bp):
AAAAAAAC
Found at i:776743 original size:15 final size:14
Alignment explanation
Indices: 776704--776801 Score: 92
Period size: 15 Copynumber: 6.9 Consensus size: 14
776694 GTCCTCCACC
*
776704 AAAAAAAAAC-CAA
1 AAAAAAAAACAAAA
* *
776717 ATAAACAAA-AAAA
1 AAAAAAAAACAAAA
*
776730 AAACAAAAACAAAA
1 AAAAAAAAACAAAA
776744 AACAAAAAAACAAAA
1 AA-AAAAAAACAAAA
776759 AACAAAAAAACAAAGCA
1 AA-AAAAAAACAAA--A
776776 AAAAAAAAACAAAA
1 AAAAAAAAACAAAA
* *
776790 TAAAAACAACAA
1 AAAAAAAAACAA
776802 CAACAAAAAG
Statistics
Matches: 71, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
13 15 0.21
14 17 0.24
15 25 0.35
16 11 0.15
17 3 0.04
ACGTcount: A:0.84, C:0.13, G:0.01, T:0.02
Consensus pattern (14 bp):
AAAAAAAAACAAAA
Found at i:776809 original size:15 final size:13
Alignment explanation
Indices: 776719--776810 Score: 75
Period size: 13 Copynumber: 6.8 Consensus size: 13
776709 AAAACCAAAT
776719 AAAC-AAAAAA-A
1 AAACAAAAAAACA
776730 AAACAAAAACAA-A
1 AAACAAAAA-AACA
776743 AAACAAAAAAACAAA
1 AAACAAAAAAAC--A
776758 AAACAAAAAAACA
1 AAACAAAAAAACA
*
776771 AAGCAAAAAAA-A
1 AAACAAAAAAACA
*
776783 AACAAAATAAAAACA
1 AA-ACAA-AAAAACA
776798 ACAACAACAAAAA
1 A-AACAA-AAAAA
776811 GGGTCCGGAT
Statistics
Matches: 67, Mismatches: 5, Indels: 14
0.78 0.06 0.16
Matches are distributed among these distances:
11 4 0.06
12 9 0.13
13 25 0.37
14 5 0.07
15 23 0.34
16 1 0.01
ACGTcount: A:0.84, C:0.14, G:0.01, T:0.01
Consensus pattern (13 bp):
AAACAAAAAAACA
Found at i:776809 original size:28 final size:28
Alignment explanation
Indices: 776703--776810 Score: 72
Period size: 28 Copynumber: 4.0 Consensus size: 28
776693 CGTCCTCCAC
*
776703 CAAAAAAAAACCAA-ATA-AAC-AAAAAA
1 CAAAAAAAAAACAACA-ACAACAAAAAAA
*
776729 -AAAACAAAAACAA-AA-AACAAAAAAA
1 CAAAAAAAAAACAACAACAACAAAAAAA
* *
776754 CAAAAAACAAAAAAACAA-AGCAAAAAAA
1 CAAAAAA-AAAACAACAACAACAAAAAAA
776782 -AAACAAAATAAA-AACAACAACAACAAAAA
1 CAAA-AAAA-AAACAACAACAACAA-AAAAA
776811 GGGTCCGGAT
Statistics
Matches: 68, Mismatches: 6, Indels: 13
0.78 0.07 0.15
Matches are distributed among these distances:
24 4 0.06
25 18 0.26
26 5 0.07
27 15 0.22
28 21 0.31
29 5 0.07
ACGTcount: A:0.82, C:0.15, G:0.01, T:0.02
Consensus pattern (28 bp):
CAAAAAAAAAACAACAACAACAAAAAAA
Found at i:776810 original size:1 final size:1
Alignment explanation
Indices: 776704--776795 Score: 58
Period size: 1 Copynumber: 92.0 Consensus size: 1
776694 GTCCTCCACC
** * * * * * * *
776704 AAAAAAAAACCAAATAAACAAAAAAAAAACAAAAACAAAAAACAAAAAAACAAAAAACAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* ** * *
776769 CAAAGCAAAAAAAAAACAAAATAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAA
776796 CAACAACAAC
Statistics
Matches: 66, Mismatches: 25, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
1 66 1.00
ACGTcount: A:0.85, C:0.12, G:0.01, T:0.02
Consensus pattern (1 bp):
A
Found at i:778335 original size:57 final size:55
Alignment explanation
Indices: 778255--778738 Score: 627
Period size: 57 Copynumber: 8.6 Consensus size: 55
778245 CCTCACCCTT
* *
778255 TTCAAAGCCCACAAATCAGTGGCAACC-TTCAAAGCCCACAAATCAGTGGCACCC
1 TTCAAAGCCCACAAATCAGTGGCACCCTTTCAAAGCCCACAAATCAGTGGCAACC
*
778309 TTTTCAAAAGCCCACAAATCAGTGGCAACC-TTCAAAGCCCACAAATCAGTGGCAACC
1 --TTC-AAAGCCCACAAATCAGTGGCACCCTTTCAAAGCCCACAAATCAGTGGCAACC
*
778366 TTCAAAGCCCACAAATCAGTGGCACCCTTTTCAAAAGCCCACAAATTAGTGGCAACC
1 TTCAAAGCCCACAAATCAGTGGCACCC-TTTC-AAAGCCCACAAATCAGTGGCAACC
* *
778423 TTCAAAGCCCACAATTCAGTGGCACCCTTTTTCAAAGCCCACAAATCAGTAGCAACC
1 TTCAAAGCCCACAAATCAGTGGCACCC--TTTCAAAGCCCACAAATCAGTGGCAACC
* *
778480 TTCAAAACCCACAAATCAGTGGCAACCTTTTCAAAAGCCCACAAATCAGTGGCAACC
1 TTCAAAGCCCACAAATCAGTGGC-ACCCTTTC-AAAGCCCACAAATCAGTGGCAACC
778537 TTCAAAGCCCACAAATCAGTGGCACCCTTTTCCAAAGCCCACAAATCAGTGGCAACC
1 TTCAAAGCCCACAAATCAGTGGCACCC-TTT-CAAAGCCCACAAATCAGTGGCAACC
* *
778594 TTCAAAGCCCACAAATCAGTAGCACCCTTTTCCAAAGCCCATAAATCAGTGGCAACC
1 TTCAAAGCCCACAAATCAGTGGCACCC-TTT-CAAAGCCCACAAATCAGTGGCAACC
* * * *
778651 TTCAAAGCCCACAAATCAGGGGCACCATTTTCCAAAGCCCAC-AAGCTAGCGGCAACC
1 TTCAAAGCCCACAAATCAGTGGCACC-CTTT-CAAAGCCCACAAATC-AGTGGCAACC
* *
778708 TTCTAAAGTCCACAACTTC-GTGGCA-CCTTTC
1 TTC-AAAGCCCACAA-ATCAGTGGCACCCTTTC
778739 TTCTTTTTAA
Statistics
Matches: 391, Mismatches: 24, Indels: 27
0.88 0.05 0.06
Matches are distributed among these distances:
54 23 0.06
55 4 0.01
56 19 0.05
57 319 0.82
58 24 0.06
59 2 0.01
ACGTcount: A:0.34, C:0.33, G:0.14, T:0.19
Consensus pattern (55 bp):
TTCAAAGCCCACAAATCAGTGGCACCCTTTCAAAGCCCACAAATCAGTGGCAACC
Found at i:778809 original size:34 final size:34
Alignment explanation
Indices: 778713--778828 Score: 110
Period size: 34 Copynumber: 3.4 Consensus size: 34
778703 CAACCTTCTA
* * * *
778713 AAGTCCACAACTTCGTGGCACCT-TTCTTCTTTTT
1 AAGTCCACAACTCCGTGACA-CTATTTTTCCTTTT
* * * * *
778747 AAAGCCCATAACTCTGTGGCACTCTTTTTCCTTTT
1 -AAGTCCACAACTCCGTGACACTATTTTTCCTTTT
778782 AAG-CTCACAACTCCGTGACACTATTTTTCCTTTT
1 AAGTC-CACAACTCCGTGACACTATTTTTCCTTTT
778816 AAGTCCACAACTC
1 AAGTCCACAACTC
778829 TGTGGTATCC
Statistics
Matches: 68, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
33 1 0.01
34 41 0.60
35 26 0.38
ACGTcount: A:0.22, C:0.30, G:0.10, T:0.37
Consensus pattern (34 bp):
AAGTCCACAACTCCGTGACACTATTTTTCCTTTT
Found at i:778920 original size:30 final size:29
Alignment explanation
Indices: 778843--778921 Score: 81
Period size: 29 Copynumber: 2.7 Consensus size: 29
778833 GTATCCTTTT
* *
778843 AAGCCCACAAGTTGGTAGCACCCCTTTCA
1 AAGCCCACAAGTTGGTGGCACACCTTTCA
**
778872 AAGCCCACAAGTCAGTGGCA-ACC-TTCAA
1 AAGCCCACAAGTTGGTGGCACACCTTTC-A
778900 AAGCCCACACAAGTTGGTGGCA
1 AAG-CC-CACAAGTTGGTGGCA
778922 TCTTCTTTAA
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
27 3 0.07
28 6 0.15
29 19 0.46
30 13 0.32
ACGTcount: A:0.32, C:0.32, G:0.20, T:0.16
Consensus pattern (29 bp):
AAGCCCACAAGTTGGTGGCACACCTTTCA
Found at i:779930 original size:13 final size:13
Alignment explanation
Indices: 779912--779968 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
779902 CATAAAGTGT
779912 TGTATCGATACAA
1 TGTATCGATACAA
779925 TGTATCGATACATAA
1 TGTATCGATAC--AA
779940 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
779957 TGTATCGATACA
1 TGTATCGATACA
779969 TAAGTTTTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 23 0.61
15 2 0.05
17 2 0.05
19 11 0.29
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:779947 original size:32 final size:32
Alignment explanation
Indices: 779892--779992 Score: 184
Period size: 32 Copynumber: 3.1 Consensus size: 32
779882 TTCAACGATT
779892 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACAT-AAGTGTTGTATCGATACAA
779925 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
779957 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
779989 TGTA
1 TGTA
779993 AGCTACTGCC
Statistics
Matches: 67, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
32 54 0.81
33 13 0.19
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.36
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:779949 original size:19 final size:18
Alignment explanation
Indices: 779890--779987 Score: 90
Period size: 19 Copynumber: 5.8 Consensus size: 18
779880 ATTTCAACGA
779890 TTTGTATCGATACATAAAG
1 TTTGTATCGATACAT-AAG
779909 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
779925 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
779941 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
779957 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
779973 TTTTGTATCGATACA
1 -TTTGTATCGATACA
779988 ATGTAAGCTA
Statistics
Matches: 66, Mismatches: 0, Indels: 26
0.72 0.00 0.28
Matches are distributed among these distances:
13 22 0.33
15 4 0.06
17 4 0.06
19 24 0.36
20 12 0.18
ACGTcount: A:0.34, C:0.12, G:0.17, T:0.37
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:780048 original size:13 final size:13
Alignment explanation
Indices: 780030--780054 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
780020 ATTACTCAAA
780030 TGTATCGATACAT
1 TGTATCGATACAT
780043 TGTATCGATACA
1 TGTATCGATACA
780055 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:780106 original size:52 final size:52
Alignment explanation
Indices: 780063--780191 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
780053 CACTGATCTT
* * *
780063 TGTATCGATACATACAGGCAAATTTGCCTAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTACCCAGATGTATCGATACACTATAAAA
780115 TGTATCGATACATGCAGGCAAATTTACCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTACCCAGATGTATCGATACACTATAAAA
780167 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
780192 TCATATTTTG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 74 1.00
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTACCCAGATGTATCGATACACTATAAAA
Found at i:784486 original size:15 final size:15
Alignment explanation
Indices: 784445--784493 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
784435 ATATCGCTAA
784445 AAAAACCAAAAA-AAT
1 AAAAA-CAAAAATAAT
784460 CAAAAA-ATAAAATAAT
1 -AAAAACA-AAAATAAT
784476 AAAAACAAAAATAA-
1 AAAAACAAAAATAAT
784490 AAAA
1 AAAA
784494 GGCGTTCGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
14 5 0.17
15 16 0.53
16 9 0.30
ACGTcount: A:0.82, C:0.08, G:0.00, T:0.10
Consensus pattern (15 bp):
AAAAACAAAAATAAT
Found at i:785926 original size:41 final size:41
Alignment explanation
Indices: 785783--787002 Score: 517
Period size: 41 Copynumber: 30.5 Consensus size: 41
785773 TGATTAGCTC
* * **
785783 TTTTCATTTGTTGA-TCATATGGTTTCATCTTCATCAAC-T
1 TTTTCATTCGTTGACTCGTATGGTTTCATCTTGGTCAACTT
* * * *
785822 TTTTCATTCATTGACTTGTATGGTTTTATTTTGGTCAACTT
1 TTTTCATTCGTTGACTCGTATGGTTTCATCTTGGTCAACTT
* * * *
785863 TTTTCGTTCG-TCAATTGTTATGGTTTCATCATT-GTCAACTT
1 TTTTCATTCGTTGACTCG-TATGGTTTCATC-TTGGTCAACTT
* * * * * *
785904 TTTTCATTCATTGATTCGTATGGTTTCGTCTAGGTTAACTC
1 TTTTCATTCGTTGACTCGTATGGTTTCATCTTGGTCAACTT
* * * *
785945 TTTTCATTCATTGACTC--AT-ATTTCATTTTGGTCAATTT
1 TTTTCATTCGTTGACTCGTATGGTTTCATCTTGGTCAACTT
** * * **
785983 TTTTCATTTATTGACTCATATGGTTTTATCTTATTCAA-TT
1 TTTTCATTCGTTGACTCGTATGGTTTCATCTTGGTCAACTT
* * * * * * *
786023 GTTTACATTCATTGACTCGTACGATTTCATTTTGGTTAACTC
1 -TTTTCATTCGTTGACTCGTATGGTTTCATCTTGGTCAACTT
*
786065 TTTTCATTCGTTGACTCGTATGGTTTCATCTTGATCAA-TT
1 TTTTCATTCGTTGACTCGTATGGTTTCATCTTGGTCAACTT
* * ** *
786105 CTTTTCATTTGTTAACTTATATGGTTTCATCTTGGTTAACTTT
1 -TTTTCATTCGTTGACTCGTATGGTTTCATCTTGGTCAAC-TT
* * ** * *
786148 TTTTCATTCGTTGACTTGTTTGGTTTTGTCCCT-ATCAA-TT
1 TTTTCATTCGTTGACTCGTATGGTTTCAT-CTTGGTCAACTT
* * *
786188 CTTTTCATTCGTTGACTCCTATGGTTTCATTTTGGTCAACTC
1 -TTTTCATTCGTTGACTCGTATGGTTTCATCTTGGTCAACTT
* * * ** ****
786230 TTTTCATTTGTTGACCCATATAATTTCATCCCAATCAACTT
1 TTTTCATTCGTTGACTCGTATGGTTTCATCTTGGTCAACTT
* ** * * *
786271 TCTTT-ATTCATTGACTCGTATGGTTTTGT-TCTGATTAGCTCT
1 T-TTTCATTCGTTGACTCGTATGGTTTCATCT-TGGTCAACT-T
* * * ***
786313 CTTT-ATTTGTTGACTTGTATGGTTTCATCTCAATCAACTT
1 TTTTCATTCGTTGACTCGTATGGTTTCATCTTGGTCAACTT
* **
786353 TTTTCATTCATTGACT--TA-GGTTTCGCCTTGGT---C--
1 TTTTCATTCGTTGACTCGTATGGTTTCATCTTGGTCAACTT
* * * * *
786386 ---TCACTTTGTTGACTTGTATGGTTTCATCTCGGTTAACTC
1 TTTTCA-TTCGTTGACTCGTATGGTTTCATCTTGGTCAACTT
* * * * * * **
786425 TTTTCATTCATTCACTCGTATGGTTCCGTTTTGGTTAACAC
1 TTTTCATTCGTTGACTCGTATGGTTTCATCTTGGTCAACTT
* * * *
786466 TTTTCATTCATTAACTCATATGGTTTCATCTCGGTCAACTCT
1 TTTTCATTCGTTGACTCGTATGGTTTCATCTTGGTCAACT-T
***
786508 TTTT-ATTCGTTGACT--TA-GGTTTTGCCTTGG-------
1 TTTTCATTCGTTGACTCGTATGGTTTCATCTTGGTCAACTT
** * * * *** *
786538 TTGCCCTTCATTAACTCGTATGGTTTCATCTCAATTAACTT
1 TTTTCATTCGTTGACTCGTATGGTTTCATCTTGGTCAACTT
* ** * *** *
786579 TTTTCATTCATTGACTAATATAGTTTCATCCCAGTCAACACT
1 TTTTCATTCGTTGACTCGTATGGTTTCATCTTGGTCAAC-TT
* * * *
786621 TTTT-ATTTGTTGATTTGTATAGTTTCAT-TATGGTCAACTT
1 TTTTCATTCGTTGACTCGTATGGTTTCATCT-TGGTCAACTT
** * * *
786661 TTTTCATTCGTTGACTCGTACAGTTTCATCTTAGTTAACTC
1 TTTTCATTCGTTGACTCGTATGGTTTCATCTTGGTCAACTT
** **
786702 TTTTCATTCGTTGACTTATATGGTTTCAT-TTCAATCAACTT
1 TTTTCATTCGTTGACTCGTATGGTTTCATCTT-GGTCAACTT
* ** * *
786743 TCTTT-ATTCGTTGACTCATATGGTTTTGTCTTGGTTAACTC
1 T-TTTCATTCGTTGACTCGTATGGTTTCATCTTGGTCAACTT
* *
786784 TTTTCATTCGTTAACTTGTAT-G--TC-TC--GGTCAACTT
1 TTTTCATTCGTTGACTCGTATGGTTTCATCTTGGTCAACTT
* * * * * *** *
786819 TTTTTATTCATTAACTTGAATGGTTTTGCCTTAGTCAACTT
1 TTTTCATTCGTTGACTCGTATGGTTTCATCTTGGTCAACTT
* ** * ** *
786860 TTTTTATTTC-TTGACTCACATGGATTT-TTCCCGATCAA-TCT
1 TTTTCA-TTCGTTGACTCGTATGG-TTTCATCTTGGTCAACT-T
*
786901 TTTT-ATTCGTTGACTCATATGGTTTCATCTTGGTCAACTAT
1 TTTTCATTCGTTGACTCGTATGGTTTCATCTTGGTCAACT-T
** * *
786942 TTTT-ATTCGTTGACTCGTATGGTTTTGTCTCGGTCAACTC
1 TTTTCATTCGTTGACTCGTATGGTTTCATCTTGGTCAACTT
* *
786982 TTTTCATTCGTTCACTAGTAT
1 TTTTCATTCGTTGACTCGTAT
787003 AAAAAATAAT
Statistics
Matches: 875, Mismatches: 238, Indels: 134
0.70 0.19 0.11
Matches are distributed among these distances:
30 5 0.01
31 16 0.02
33 4 0.00
34 18 0.02
35 26 0.03
36 1 0.00
37 3 0.00
38 48 0.05
39 25 0.03
40 72 0.08
41 590 0.67
42 63 0.07
43 4 0.00
ACGTcount: A:0.19, C:0.18, G:0.13, T:0.50
Consensus pattern (41 bp):
TTTTCATTCGTTGACTCGTATGGTTTCATCTTGGTCAACTT
Found at i:786218 original size:165 final size:161
Alignment explanation
Indices: 785881--786244 Score: 390
Period size: 165 Copynumber: 2.2 Consensus size: 161
785871 CGTCAATTGT
* * * * * * *
785881 TATGGTTTCATCATT-GTCAACTTTTTTCATTCATTGATTCGTATGGTTTCGTCTAGGTTAACTC
1 TATGGTTTCAT-TTTGGTCAACTCTTTTCATTCGTTGACTCGTATGGTTTCATCTAGATCAACTC
* * *
785945 TTTTCATTCATTGACTCATATTTCATTTTGGTCAATTTTTTTCATTTATTGACTCATATGGTTTT
65 TTTTCATTCATTAACTCATATTTCATCTTGGTCAATTTTTTTCATTCATTGACTCATATGGTTTT
* * *
786010 ATCTTATTCAATTGTTTACATTCATTGACTCG
130 ATCCTATTCAATTCTTTACATTCATTGACTCC
* * * * *
786042 TACGATTTCATTTTGGTTAACTCTTTTCATTCGTTGACTCGTATGGTTTCATCTTGATCAATTCT
1 TATGGTTTCATTTTGGTCAACTCTTTTCATTCGTTGACTCGTATGGTTTCATCTAGATCAACTCT
** * * * ** *
786107 TTTCATTTGTTAACTTATATGGTTTCATCTTGGTTAACTTTTTTTCATTCGTTGACTTGTTTGGT
66 TTTCATTCATTAACTCATA---TTTCATCTTGGTCAA-TTTTTTTCATTCATTGACTCATATGGT
* * *
786172 TTTGTCCCTA-TCAATTCTTTTCATTCGTTGACTCC
127 TTTAT-CCTATTCAATTCTTTACATTCATTGACTCC
*
786207 TATGGTTTCATTTTGGTCAACTCTTTTCATTTGTTGAC
1 TATGGTTTCATTTTGGTCAACTCTTTTCATTCGTTGAC
786245 CCATATAATT
Statistics
Matches: 164, Mismatches: 33, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
160 2 0.01
161 65 0.40
164 13 0.08
165 81 0.49
166 3 0.02
ACGTcount: A:0.18, C:0.17, G:0.13, T:0.52
Consensus pattern (161 bp):
TATGGTTTCATTTTGGTCAACTCTTTTCATTCGTTGACTCGTATGGTTTCATCTAGATCAACTCT
TTTCATTCATTAACTCATATTTCATCTTGGTCAATTTTTTTCATTCATTGACTCATATGGTTTTA
TCCTATTCAATTCTTTACATTCATTGACTCC
Found at i:786270 original size:124 final size:123
Alignment explanation
Indices: 786063--786360 Score: 303
Period size: 124 Copynumber: 2.4 Consensus size: 123
786053 TTTGGTTAAC
* * ** *
786063 TCTTTTCATTCGTTGACTCGTATGGTTTCATCTTGATCAATTCTTTTCATTTGTTAACTTATATG
1 TCTTTTCATTCGTTGACTCCTATGGTTTCATCTTGATCAACTCTTTTCATTTGTTAACCCATATA
* **** * * * * *
786128 GTTTCATCTTGGTTAACTTTTTTTCATTCGTTGACTTGTTTGGTTTTGTCCCTATCAAT
66 ATTTCATCCCAATCAACTTTCTTT-ATTCATTGACTCGTATGGTTTTGTCCCTATCAAT
* * *
786187 TCTTTTCATTCGTTGACTCCTATGGTTTCATTTTGGTCAACTCTTTTCATTTGTTGACCCATATA
1 TCTTTTCATTCGTTGACTCCTATGGTTTCATCTTGATCAACTCTTTTCATTTGTTAACCCATATA
* * **
786252 ATTTCATCCCAATCAACTTTCTTTATTCATTGACTCGTATGGTTTTGT-TCTGATTAGC
66 ATTTCATCCCAATCAACTTTCTTTATTCATTGACTCGTATGGTTTTGTCCCT-ATCAAT
* ** ** *
786310 TCTCTTT-ATTTGTTGACTTGTATGGTTTCATCTCAATCAACTTTTTTCATT
1 TCT-TTTCATTCGTTGACTCCTATGGTTTCATCTTGATCAACTCTTTTCATT
786361 CATTGACTTA
Statistics
Matches: 142, Mismatches: 30, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
122 2 0.01
123 63 0.44
124 77 0.54
ACGTcount: A:0.17, C:0.19, G:0.12, T:0.51
Consensus pattern (123 bp):
TCTTTTCATTCGTTGACTCCTATGGTTTCATCTTGATCAACTCTTTTCATTTGTTAACCCATATA
ATTTCATCCCAATCAACTTTCTTTATTCATTGACTCGTATGGTTTTGTCCCTATCAAT
Found at i:786295 original size:165 final size:163
Alignment explanation
Indices: 785943--786296 Score: 358
Period size: 165 Copynumber: 2.2 Consensus size: 163
785933 CTAGGTTAAC
* * *
785943 TCTTTTCATTCATTGACTC-AT-ATTTCATTTTGGTCAATTTTTTTCATTTATTGACTCATATGG
1 TCTTTTCATTCATTGACTCTATGGTTTCATCTTGGTCAATTTTTTTCATTCATTGACTCATATGG
* * * *
786006 TTTTATCTTATTCAATTGTTTACATTCATTGACTCGTACGATTTCATTTTGGTTAACTCTTTTCA
66 TTTTATCCTATTCAATTCTTTACATTCATTGACTCCTACGATTTCATTTTGGTCAACTCTTTTCA
* * ** ***
786071 TTCGTTGACTCGTATGGTTTCATCTTGATCAAT
131 TTCGTTGACCCATATAATTTCATCCCAATCAAT
** * * * * ** *
786104 TCTTTTCATTTGTTAACTTATATGGTTTCATCTTGGTTAACTTTTTTTCATTCGTTGACTTGTTT
1 TCTTTTCATTCATTGAC-TCTATGGTTTCATCTTGGTCAA-TTTTTTTCATTCATTGACTCATAT
* * * * *
786169 GGTTTTGTCCCTA-TCAATTCTTTTCATTCGTTGACTCCTATGGTTTCATTTTGGTCAACTCTTT
64 GGTTTTAT-CCTATTCAATTCTTTACATTCATTGACTCCTACGATTTCATTTTGGTCAACTCTTT
*
786233 TCATTTGTTGACCCATATAATTTCATCCCAATCAACT
128 TCATTCGTTGACCCATATAATTTCATCCCAATCAA-T
786270 T-TCTTT-ATTCATTGACTCGTATGGTTT
1 TCT-TTTCATTCATTGACTC-TATGGTTT
786297 TGTTCTGATT
Statistics
Matches: 152, Mismatches: 33, Indels: 12
0.77 0.17 0.06
Matches are distributed among these distances:
161 14 0.09
162 1 0.01
163 2 0.01
164 14 0.09
165 113 0.74
166 8 0.05
ACGTcount: A:0.19, C:0.18, G:0.12, T:0.51
Consensus pattern (163 bp):
TCTTTTCATTCATTGACTCTATGGTTTCATCTTGGTCAATTTTTTTCATTCATTGACTCATATGG
TTTTATCCTATTCAATTCTTTACATTCATTGACTCCTACGATTTCATTTTGGTCAACTCTTTTCA
TTCGTTGACCCATATAATTTCATCCCAATCAAT
Found at i:786408 original size:72 final size:72
Alignment explanation
Indices: 786329--786594 Score: 230
Period size: 72 Copynumber: 3.6 Consensus size: 72
786319 TTGTTGACTT
786329 GTATGGTTTCATCTCAATCAACTTTTTTCATTCATTGACTTAGGTTTCGCCTTGGTCT-CACTTT
1 GTATGGTTTCATCTCAATCAACTTTTTTCATTCATTGACTTAGGTTTCGCCTTGGT-TACACTTT
* * *
786393 GTTGACTT
65 ATTAACTC
** * * * * **
786401 GTATGGTTTCATCTCGGTTAACTCTTTTCATTCATTCACTCGTATGGTTCCGTTTTGGTTAACAC
1 GTATGGTTTCATCTCAATCAACTTTTTTCATTCATTGACT--TA-GGTTTCGCCTTGGTT-ACAC
786466 TTTTCATTCATTAACTC
62 ---T--TT-ATTAACTC
* ** * * * * *
786483 ATATGGTTTCATCTCGGTCAACTCTTTTT-ATTCGTTGACTTAGGTTTTGCCTTGGTTGCCCTTC
1 GTATGGTTTCATCTCAATCAACT-TTTTTCATTCATTGACTTAGGTTTCGCCTTGGTTACACTTT
786547 ATTAACTC
65 ATTAACTC
*
786555 GTATGGTTTCATCTCAATTAACTTTTTTCATTCATTGACT
1 GTATGGTTTCATCTCAATCAACTTTTTTCATTCATTGACT
786595 AATATAGTTT
Statistics
Matches: 153, Mismatches: 28, Indels: 26
0.74 0.14 0.13
Matches are distributed among these distances:
71 5 0.03
72 72 0.47
73 1 0.01
74 3 0.02
75 12 0.08
76 3 0.02
78 2 0.01
79 12 0.08
80 2 0.01
81 2 0.01
82 35 0.23
83 4 0.03
ACGTcount: A:0.18, C:0.21, G:0.14, T:0.47
Consensus pattern (72 bp):
GTATGGTTTCATCTCAATCAACTTTTTTCATTCATTGACTTAGGTTTCGCCTTGGTTACACTTTA
TTAACTC
Found at i:786447 original size:154 final size:154
Alignment explanation
Indices: 786253--786590 Score: 369
Period size: 154 Copynumber: 2.2 Consensus size: 154
786243 ACCCATATAA
* * * * ** * *
786253 TTTCATCCCAATCAACT-TTCTTTATTCATTGACTCGTATGGTTTTGTTCTGATTAGCTCTCTTT
1 TTTCATCTCAATTAACTCTT-TTCATTCATTCACTCGTATGGTTCCGTTCTGATTAACACT-TTT
** * **
786317 -ATTTGTTGACTTGTATGGTTTCATCTCAATCAACT-TTTTTCATTCATTGACTTAGGTTTCGCC
64 CATTCATTAACTCATATGGTTTCATCTCAATCAACTCTTTTT-ATTCATTGACTTAGGTTTCGCC
** * *
786380 TTGGTCT-CACTTTGTTGACTTGTATGG
128 TTGGT-TGCACTTCATTAACTCGTATGG
** * *
786407 TTTCATCTCGGTTAACTCTTTTCATTCATTCACTCGTATGGTTCCGTTTTGGTTAACACTTTTCA
1 TTTCATCTCAATTAACTCTTTTCATTCATTCACTCGTATGGTTCCGTTCTGATTAACACTTTTCA
** * *
786472 TTCATTAACTCATATGGTTTCATCTCGGTCAACTCTTTTTATTCGTTGACTTAGGTTTTGCCTTG
66 TTCATTAACTCATATGGTTTCATCTCAATCAACTCTTTTTATTCATTGACTTAGGTTTCGCCTTG
*
786537 GTTGCCCTTCATTAACTCGTATGG
131 GTTGCACTTCATTAACTCGTATGG
*
786561 TTTCATCTCAATTAACTTTTTTCATTCATT
1 TTTCATCTCAATTAACTCTTTTCATTCATT
786591 GACTAATATA
Statistics
Matches: 151, Mismatches: 29, Indels: 8
0.80 0.15 0.04
Matches are distributed among these distances:
153 4 0.03
154 140 0.93
155 7 0.05
ACGTcount: A:0.17, C:0.21, G:0.14, T:0.48
Consensus pattern (154 bp):
TTTCATCTCAATTAACTCTTTTCATTCATTCACTCGTATGGTTCCGTTCTGATTAACACTTTTCA
TTCATTAACTCATATGGTTTCATCTCAATCAACTCTTTTTATTCATTGACTTAGGTTTCGCCTTG
GTTGCACTTCATTAACTCGTATGG
Found at i:786646 original size:154 final size:154
Alignment explanation
Indices: 786314--786676 Score: 390
Period size: 154 Copynumber: 2.4 Consensus size: 154
786304 ATTAGCTCTC
** *
786314 TTTATTTGTTGACTTGTATGGTTTCATCTCAATCAACTTTTTTCATTCATTGACTTAGGTTTCGC
1 TTTATTTGTTGACTTGTATGGTTTCATCTCGGTCAACTTTTTTCATTCGTTGACTTAGGTTTCGC
** * * ** **
786379 CTTGGTCTCACTTTGTTGACTTGTATGGTTTCATCTCGGTTAACTCTTTTCATTCATTCACTCGT
66 CTTGGTCTCACTTCATTAACTCGTATGGTTTCATCTCAATTAACTCTTTTCATTCATTCACTAAT
* * **** *
786444 ATGGTTCCGTTTTGGTTAACACTT
131 ATAGTTCCATCCCAGTCAACACTT
* ** * ** *
786468 TTCATTCATTAACTCATATGGTTTCATCTCGGTCAACTCTTTTT-ATTCGTTGACTTAGGTTTTG
1 TTTATTTGTTGACTTGTATGGTTTCATCTCGGTCAACT-TTTTTCATTCGTTGACTTAGGTTTCG
* * *
786532 CCTTGGT-TGCCCTTCATTAACTCGTATGGTTTCATCTCAATTAACTTTTTTCATTCATTGACTA
65 CCTTGGTCT-CACTTCATTAACTCGTATGGTTTCATCTCAATTAACTCTTTTCATTCATTCACTA
*
786596 ATATAGTTTCATCCCAGTCAACACTT
129 ATATAGTTCCATCCCAGTCAACACTT
* * *
786622 TTTATTTGTTGATTTGTATAGTTTCAT-TATGGTCAACTTTTTTCATTCGTTGACT
1 TTTATTTGTTGACTTGTATGGTTTCATCT-CGGTCAACTTTTTTCATTCGTTGACT
786677 CGTACAGTTT
Statistics
Matches: 167, Mismatches: 38, Indels: 8
0.78 0.18 0.04
Matches are distributed among these distances:
153 7 0.04
154 155 0.93
155 5 0.03
ACGTcount: A:0.19, C:0.19, G:0.14, T:0.48
Consensus pattern (154 bp):
TTTATTTGTTGACTTGTATGGTTTCATCTCGGTCAACTTTTTTCATTCGTTGACTTAGGTTTCGC
CTTGGTCTCACTTCATTAACTCGTATGGTTTCATCTCAATTAACTCTTTTCATTCATTCACTAAT
ATAGTTCCATCCCAGTCAACACTT
Found at i:786808 original size:35 final size:35
Alignment explanation
Indices: 786769--786836 Score: 91
Period size: 35 Copynumber: 1.9 Consensus size: 35
786759 CATATGGTTT
* * *
786769 TGTCTTGGTTAACTCTTTTCATTCGTTAACTTGTA
1 TGTCTCGGTCAACTCTTTTCATTCATTAACTTGTA
* *
786804 TGTCTCGGTCAACTTTTTTTATTCATTAACTTG
1 TGTCTCGGTCAACTCTTTTCATTCATTAACTTG
786837 AATGGTTTTG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 28 1.00
ACGTcount: A:0.18, C:0.18, G:0.13, T:0.51
Consensus pattern (35 bp):
TGTCTCGGTCAACTCTTTTCATTCATTAACTTGTA
Found at i:787087 original size:20 final size:21
Alignment explanation
Indices: 787058--787097 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
787048 TTGCATCCTA
787058 GTTAA-CTTTTTCATTCGTTG
1 GTTAATCTTTTTCATTCGTTG
*
787078 GTTAATTTTTTTCATTCGTT
1 GTTAATCTTTTTCATTCGTT
787098 AACTTGTATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.15, C:0.12, G:0.12, T:0.60
Consensus pattern (21 bp):
GTTAATCTTTTTCATTCGTTG
Found at i:787327 original size:41 final size:41
Alignment explanation
Indices: 787086--787420 Score: 194
Period size: 41 Copynumber: 8.2 Consensus size: 41
787076 TGGTTAATTT
* * * *
787086 TTTTCATTCGTTAACTTGTATGGTTTCGT-TCTTGTCAATTC
1 TTTTCATTCGTTAACTCGTATGGTTTCATCTC-GGTCAACTC
* * * * * ** * *
787127 TTTTAATTTGTTAACTTGTATGGCTTT-GTTTCATTC-ATTT
1 TTTTCATTCGTTAACTCGTATGG-TTTCATCTCGGTCAACTC
* * * * * *
787167 TTTTAATTCATTAACTCGTATGGCTTCGTCTTGATCAACTC
1 TTTTCATTCGTTAACTCGTATGGTTTCATCTCGGTCAACTC
* * ** * * *
787208 GTTTCATTCGTTGACTCAAATGGTTACATCTTGGTCAAATC
1 TTTTCATTCGTTAACTCGTATGGTTTCATCTCGGTCAACTC
* * * * *
787249 TTTTCATTCGTTGACTTGTATGGCTTCATCGT-AGTTAACTC
1 TTTTCATTCGTTAACTCGTATGGTTTCATC-TCGGTCAACTC
* * * *
787290 TTTTCATTCATTAACTCATATGGTTTCGTCTCGGTTAAC-C
1 TTTTCATTCGTTAACTCGTATGGTTTCATCTCGGTCAACTC
** * * *
787330 TTTTTCATTTTTTGACTCGTATGGTTTCATCTCGGTCAATTG
1 -TTTTCATTCGTTAACTCGTATGGTTTCATCTCGGTCAACTC
* ** * *
787372 TTTTCATTTGTTAACTCGTATGGTTTTGTCTCGGTCAATTG
1 TTTTCATTCGTTAACTCGTATGGTTTCATCTCGGTCAACTC
787413 TTTTCATT
1 TTTTCATT
787421 TTTTGGCTTA
Statistics
Matches: 232, Mismatches: 54, Indels: 16
0.77 0.18 0.05
Matches are distributed among these distances:
39 2 0.01
40 30 0.13
41 194 0.84
42 6 0.03
ACGTcount: A:0.18, C:0.18, G:0.15, T:0.50
Consensus pattern (41 bp):
TTTTCATTCGTTAACTCGTATGGTTTCATCTCGGTCAACTC
Found at i:787417 original size:123 final size:123
Alignment explanation
Indices: 787119--787420 Score: 304
Period size: 123 Copynumber: 2.5 Consensus size: 123
787109 TTTCGTTCTT
* * * * *
787119 GTCAATTCTTTTAATTTGTTAACTTGTATGGCTTTGTTTCATTC-ATTTTTTTAATTCATTAACT
1 GTCAATTCTTTTCATTTGTTAACTTGTATGGCTTTGTCTCAGTCAATTCTTTTCATTCATTAACT
* * *
787183 CGTATGGCTTCGTCTTGATCAACTCGTTTCATTCGTTGACTCAAATGGTTACATCTTG
66 CATATGGCTTCGTCTCGATCAACTCGTTTCATTCGTTGACTCAAATGGTTACATCTCG
* * * ** * *
787241 GTCAAATCTTTTCATTCGTTGACTTGTATGGCTTCATCGT-AGTTAACTCTTTTCATTCATTAAC
1 GTCAATTCTTTTCATTTGTTAACTTGTATGGCTTTGTC-TCAGTCAATTCTTTTCATTCATTAAC
* * * * ** ** *
787305 TCATATGGTTTCGTCTCGGTTAAC-CTTTTTCATTTTTTGACTCGTATGGTTTCATCTCG
65 TCATATGGCTTCGTCTCGATCAACTC-GTTTCATTCGTTGACTCAAATGGTTACATCTCG
* * * * *
787364 GTCAATTGTTTTCATTTGTTAACTCGTATGGTTTTGTCTCGGTCAATTGTTTTCATT
1 GTCAATTCTTTTCATTTGTTAACTTGTATGGCTTTGTCTCAGTCAATTCTTTTCATT
787421 TTTTGGCTTA
Statistics
Matches: 140, Mismatches: 36, Indels: 7
0.77 0.20 0.04
Matches are distributed among these distances:
122 35 0.25
123 105 0.75
ACGTcount: A:0.19, C:0.18, G:0.15, T:0.49
Consensus pattern (123 bp):
GTCAATTCTTTTCATTTGTTAACTTGTATGGCTTTGTCTCAGTCAATTCTTTTCATTCATTAACT
CATATGGCTTCGTCTCGATCAACTCGTTTCATTCGTTGACTCAAATGGTTACATCTCG
Found at i:787440 original size:82 final size:82
Alignment explanation
Indices: 787285--787475 Score: 197
Period size: 82 Copynumber: 2.3 Consensus size: 82
787275 CATCGTAGTT
* ** * * *
787285 AACTCTTTTCATTCATTAACTCATATGGTTTCGTCTCGGTTAACCTTTTTCATTTTTTGACTCGT
1 AACTTTTTTCATTTGTTAACTCGTATGGTTTCGTCTCGGTCAACCTTTTTCATTTTTTGACTCAT
***
787350 ATGGTTTCATCTCGGTC
66 ACAATTTCATCTCGGTC
* * * *
787367 AA-TTGTTTTCATTTGTTAACTCGTATGGTTTTGTCTCGGTCAA-TTGTTTTCATTTTTTGGCTT
1 AACTT-TTTTCATTTGTTAACTCGTATGGTTTCGTCTCGGTCAACCT-TTTTCATTTTTTGACTC
* *
787430 ATACAATTTCATCTTGGTT
64 ATACAATTTCATCTCGGTC
* *
787449 AACTTTTTTCATTTGTTGACTTGTATG
1 AACTTTTTTCATTTGTTAACTCGTATG
787476 TGTAGACACC
Statistics
Matches: 89, Mismatches: 17, Indels: 6
0.79 0.15 0.05
Matches are distributed among these distances:
81 2 0.02
82 85 0.96
83 2 0.02
ACGTcount: A:0.17, C:0.17, G:0.15, T:0.51
Consensus pattern (82 bp):
AACTTTTTTCATTTGTTAACTCGTATGGTTTCGTCTCGGTCAACCTTTTTCATTTTTTGACTCAT
ACAATTTCATCTCGGTC
Found at i:791418 original size:61 final size:61
Alignment explanation
Indices: 791353--791486 Score: 151
Period size: 61 Copynumber: 2.2 Consensus size: 61
791343 GAGCTTGAAT
*
791353 ATGAAAAGAATGATAAAAGTGACAATGTACTGATTCAAGGCTAACGACATTGGACTTAAAG
1 ATGAAAAGAATGATAAAAGTGACAATATACTGATTCAAGGCTAACGACATTGGACTTAAAG
* * * * * * * * * *
791414 ATGAAAAGAATAATGAAGGTGCCGATATGCTGATTCAAGGCTAGCGATATTGGGCTTAACG
1 ATGAAAAGAATGATAAAAGTGACAATATACTGATTCAAGGCTAACGACATTGGACTTAAAG
**
791475 ATGCGAAGAATG
1 ATGAAAAGAATG
791487 CTAATATACT
Statistics
Matches: 59, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
61 59 1.00
ACGTcount: A:0.40, C:0.12, G:0.25, T:0.23
Consensus pattern (61 bp):
ATGAAAAGAATGATAAAAGTGACAATATACTGATTCAAGGCTAACGACATTGGACTTAAAG
Found at i:791597 original size:61 final size:52
Alignment explanation
Indices: 791546--791953 Score: 218
Period size: 52 Copynumber: 7.5 Consensus size: 52
791536 ATAATGAAGG
* * *
791546 TGCCGATATGCTTATTCAAGGCCAGCGATATTGGGCTTAAAGATGCGAAGAA
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTAAAGATGAGAAGAA
* * * *
791598 TGCCAATGTGCTGATTCAAGGCTAGCAATATTGGGCTTAAAGATGCGAAGAA
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTAAAGATGAGAAGAA
* * ** *
791650 TGCCAATGTGCTAATTTGAGGCCAACGATATT-GGCTTAAAGATGAGAAGAATAA
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTAAAGATGAGAAG---AA
* * * * * *
791704 TGAAGGCGCCGATATGCCGATTCAAGGCCAACGATATTGGGCGT-AAGA-AAGAAAAA
1 T------GCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTAAAGATGAGAAGAA
* * * * * * * * *
791760 GGTTCCAATGTGCTGATTCAAAGG-GAGTGACATTGGACTTAAAGATAACAA-AGG
1 --TGCCAATATGCTGATTC-AAGGCCAGCGATATTGGGCTTAAAGATGAGAAGA-A
* * ** * * *
791814 CGCCAATATGTTGATTCAAAACCAGCAATATTGGACTTGAAGATGAGAAGAATGATAAAGA
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTAAAGAT--G-AGAA-G----A-A
* *
791875 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT-AAGA-AAGAAAAA
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTAAAGATGAGAAGAA
*
791925 GCTGCCAATGTGCTGATTCAAGGCCAGCG
1 --TGCCAATATGCTGATTCAAGGCCAGCG
791954 CCATTTGGAC
Statistics
Matches: 272, Mismatches: 56, Indels: 56
0.71 0.15 0.15
Matches are distributed among these distances:
50 1 0.00
51 19 0.07
52 151 0.56
53 9 0.03
54 7 0.03
55 3 0.01
56 6 0.02
58 1 0.00
59 4 0.01
60 33 0.12
61 38 0.14
ACGTcount: A:0.35, C:0.16, G:0.26, T:0.23
Consensus pattern (52 bp):
TGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTAAAGATGAGAAGAA
Found at i:791634 original size:165 final size:164
Alignment explanation
Indices: 791432--791953 Score: 593
Period size: 165 Copynumber: 3.2 Consensus size: 164
791422 AATAATGAAG
* * * * *
791432 GTGCCGATATGCTGATTCAAGGCTAGCGATATTGGGCTTAACGATGCGAAGAATGCTAATATACT
1 GTGCCAATGTGCTGATTCAAGGCTAGCGATATTGGGCTTAAAGATGCGAAGAATGCCAATATGCT
* * * *
791497 AATTCAAGGCCAGTGATATTGGATTTAAAGATGATAAGAATAATGAAGGTGCCGATATGCTTATT
66 AATTCAAGGCCAGCGATATTGGACTTAAAGATGAGAAGAATAATGAAGGTGCCGATATGCTGATT
** *
791562 CAAGGCCAGCGATATTGGGCTTAAAGATGCGAAGAA
131 CAAGGCCAGCGATATTGGGCTT-AAGA-AAGAAAAA
* *
791598 -TGCCAATGTGCTGATTCAAGGCTAGCAATATTGGGCTTAAAGATGCGAAGAATGCCAATGTGCT
1 GTGCCAATGTGCTGATTCAAGGCTAGCGATATTGGGCTTAAAGATGCGAAGAATGCCAATATGCT
** * * *
791662 AATTTGAGGCCAACGATATTGG-CTTAAAGATGAGAAGAATAATGAAGGCGCCGATATGCCGATT
66 AATTCAAGGCCAGCGATATTGGACTTAAAGATGAGAAGAATAATGAAGGTGCCGATATGCTGATT
* *
791726 CAAGGCCAACGATATTGGGCGTAAGAAAGAAAAA
131 CAAGGCCAGCGATATTGGGCTTAAGAAAGAAAAA
* * * * * * * **
791760 GGTTCCAATGTGCTGATTCAAAGG-GAGTGACATTGGACTTAAAGATAACAAAG-GCGCCAATAT
1 -GTGCCAATGTGCTGATTC-AAGGCTAGCGATATTGGGCTTAAAGAT-GCGAAGAATGCCAATAT
* * ** * * * * * *
791823 GTTGATTCAAAACCAGCAATATTGGACTTGAAGATGAGAAGAATGATAAAGATGCCAATATGCTG
63 GCTAATTCAAGGCCAGCGATATTGGACTTAAAGATGAGAAGAATAATGAAGGTGCCGATATGCTG
791888 ATTCAAGGCCAGCGATATTGGGCTTAAGAAAGAAAAA
128 ATTCAAGGCCAGCGATATTGGGCTTAAGAAAGAAAAA
*
791925 GCTGCCAATGTGCTGATTCAAGGCCAGCG
1 G-TGCCAATGTGCTGATTCAAGGCTAGCG
791954 CCATTTGGAC
Statistics
Matches: 297, Mismatches: 52, Indels: 15
0.82 0.14 0.04
Matches are distributed among these distances:
162 5 0.02
163 4 0.01
164 119 0.40
165 169 0.57
ACGTcount: A:0.35, C:0.15, G:0.26, T:0.24
Consensus pattern (164 bp):
GTGCCAATGTGCTGATTCAAGGCTAGCGATATTGGGCTTAAAGATGCGAAGAATGCCAATATGCT
AATTCAAGGCCAGCGATATTGGACTTAAAGATGAGAAGAATAATGAAGGTGCCGATATGCTGATT
CAAGGCCAGCGATATTGGGCTTAAGAAAGAAAAA
Found at i:791650 original size:113 final size:113
Alignment explanation
Indices: 791375--791642 Score: 401
Period size: 113 Copynumber: 2.4 Consensus size: 113
791365 ATAAAAGTGA
* *
791375 CAATGTACTGATTCAAGGCTAACGACATTGGACTTAAAGATGAAAAGAATAATGAAGGTGCCGAT
1 CAATGTACTGATTCAAGGCTAGCGATATTGGACTTAAAGATGAAAAGAATAATGAAGGTGCCGAT
* *
791440 ATGCTGATTCAAGGCTAGCGATATTGGGCTTAACGATGCGAAGAATGC
66 ATGCTGATTCAAGGCCAGCGATATTGGGCTTAAAGATGCGAAGAATGC
* * * * * * *
791488 TAATATACTAATTCAAGGCCAGTGATATTGGATTTAAAGATGATAAGAATAATGAAGGTGCCGAT
1 CAATGTACTGATTCAAGGCTAGCGATATTGGACTTAAAGATGAAAAGAATAATGAAGGTGCCGAT
*
791553 ATGCTTATTCAAGGCCAGCGATATTGGGCTTAAAGATGCGAAGAATGC
66 ATGCTGATTCAAGGCCAGCGATATTGGGCTTAAAGATGCGAAGAATGC
* * *
791601 CAATGTGCTGATTCAAGGCTAGCAATATTGGGCTTAAAGATG
1 CAATGTACTGATTCAAGGCTAGCGATATTGGACTTAAAGATG
791643 CGAAGAATGC
Statistics
Matches: 134, Mismatches: 21, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
113 134 1.00
ACGTcount: A:0.35, C:0.14, G:0.25, T:0.26
Consensus pattern (113 bp):
CAATGTACTGATTCAAGGCTAGCGATATTGGACTTAAAGATGAAAAGAATAATGAAGGTGCCGAT
ATGCTGATTCAAGGCCAGCGATATTGGGCTTAAAGATGCGAAGAATGC
Found at i:792108 original size:31 final size:30
Alignment explanation
Indices: 792034--792132 Score: 153
Period size: 31 Copynumber: 3.2 Consensus size: 30
792024 TAGAAAGAAA
*
792034 TGCCACCGACTTGTGTGGGCTTTAGAAAGGT
1 TGCCA-CGACTTGTGTGGACTTTAGAAAGGT
*
792065 TGCCACGACTTGTGTGGACTTTAGAAAAGT
1 TGCCACGACTTGTGTGGACTTTAGAAAGGT
*
792095 TGCCATCGACTTGTATGGACTTTAGAAAGGT
1 TGCCA-CGACTTGTGTGGACTTTAGAAAGGT
792126 TGCCACG
1 TGCCACG
792133 GAGTTGTGGG
Statistics
Matches: 63, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
30 30 0.48
31 33 0.52
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.29
Consensus pattern (30 bp):
TGCCACGACTTGTGTGGACTTTAGAAAGGT
Found at i:792199 original size:29 final size:30
Alignment explanation
Indices: 792155--792227 Score: 87
Period size: 29 Copynumber: 2.4 Consensus size: 30
792145 TTGAAAAGAA
*
792155 AAAGG-TGCCACAGAGTCATGGGCTTT-AG
1 AAAGGATGCCACGGAGTCATGGGCTTTAAG
* *
792183 GAAGGATGCCACGGAGTCGTGGGCTTTGAAAG
1 AAAGGATGCCACGGAGTCATGGGCTTT--AAG
792215 AAAGGATGCCACG
1 AAAGGATGCCACG
792228 ACATTGTGGG
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
28 4 0.11
29 19 0.51
32 14 0.38
ACGTcount: A:0.29, C:0.18, G:0.36, T:0.18
Consensus pattern (30 bp):
AAAGGATGCCACGGAGTCATGGGCTTTAAG
Found at i:792225 original size:32 final size:32
Alignment explanation
Indices: 792118--792258 Score: 130
Period size: 32 Copynumber: 4.4 Consensus size: 32
792108 TATGGACTTT
* * *
792118 AGAAAGGTTGCCACGGAGTTGTGGGTTTTGAAA
1 AGAAAGGATGCCACGGAGTCGTGGGCTTTG-AA
* *
792151 AGAAAAAGG-TGCCACAGAGTCATGGGCTTT---
1 AG--AAAGGATGCCACGGAGTCGTGGGCTTTGAA
*
792181 AGGAAGGATGCCACGGAGTCGTGGGCTTTGAA
1 AGAAAGGATGCCACGGAGTCGTGGGCTTTGAA
* *
792213 AGAAAGGATGCCAC-GACATTGTGGGCTTTGAA
1 AGAAAGGATGCCACGGA-GTCGTGGGCTTTGAA
*
792245 AAAAAGGATGCCAC
1 AGAAAGGATGCCAC
792259 CTACTTATGT
Statistics
Matches: 90, Mismatches: 11, Indels: 15
0.78 0.09 0.13
Matches are distributed among these distances:
28 4 0.04
29 19 0.21
30 2 0.02
31 2 0.02
32 39 0.43
33 2 0.02
34 17 0.19
35 5 0.06
ACGTcount: A:0.31, C:0.15, G:0.33, T:0.21
Consensus pattern (32 bp):
AGAAAGGATGCCACGGAGTCGTGGGCTTTGAA
Found at i:802141 original size:13 final size:13
Alignment explanation
Indices: 802123--802147 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
802113 ATAATGATAA
802123 ATGTATCGATACG
1 ATGTATCGATACG
802136 ATGTATCGATAC
1 ATGTATCGATAC
802148 ATTTCCTTAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACG
Found at i:803434 original size:21 final size:22
Alignment explanation
Indices: 803388--803451 Score: 60
Period size: 21 Copynumber: 2.9 Consensus size: 22
803378 CACGTCTTTG
*
803388 CTTTTTTATTTTTGTTGTTCCC
1 CTTTTTTATTTTTGTTGTTACC
*
803410 CTTTTTTA-TTTTGCTT-TTACT
1 CTTTTTTATTTTTG-TTGTTACC
*
803431 CTTTTTTTTGTGTTTGTTGTT
1 CTTTTTTAT-T-TTTGTTGTT
803452 CTTTTTTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
21 15 0.44
22 10 0.29
23 3 0.09
24 6 0.18
ACGTcount: A:0.05, C:0.12, G:0.11, T:0.72
Consensus pattern (22 bp):
CTTTTTTATTTTTGTTGTTACC
Found at i:806933 original size:30 final size:29
Alignment explanation
Indices: 806857--806992 Score: 132
Period size: 29 Copynumber: 4.7 Consensus size: 29
806847 TTAAGCTGCT
* * *
806857 GTTTCGATTGCATTCATTTGTTTGCAGCA
1 GTTTCGATTGCTTTCATTTGTTTGTAGTA
* *
806886 GTTTCAATTACTTTCATTTGTTTGTAGTA
1 GTTTCGATTGCTTTCATTTGTTTGTAGTA
* *
806915 GTTTCGATTGTTTTTCATTTCTTTGCT-GTA
1 GTTTCGATTG-CTTTCATTTGTTTG-TAGTA
* * * *
806945 GTTTTGATTGCTTTCATTTGCTTATAGCA
1 GTTTCGATTGCTTTCATTTGTTTGTAGTA
806974 GTTAT-GATTGCTTTCATTT
1 GTT-TCGATTGCTTTCATTT
806993 CTTATTTGTT
Statistics
Matches: 88, Mismatches: 15, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
28 1 0.01
29 61 0.69
30 25 0.28
31 1 0.01
ACGTcount: A:0.16, C:0.13, G:0.17, T:0.54
Consensus pattern (29 bp):
GTTTCGATTGCTTTCATTTGTTTGTAGTA
Found at i:806940 original size:59 final size:58
Alignment explanation
Indices: 806862--806995 Score: 144
Period size: 59 Copynumber: 2.3 Consensus size: 58
806852 CTGCTGTTTC
* * * * *
806862 GATTGCATTCATTTGTTTGCAGCAGTTTCAATTACTTTCATTTGTTTGTAGTAGTT-T
1 GATTGCTTTCATTTCTTTGCAGCAGTTTCAATTACTTTCATTTGCTTATAGCAGTTAT
* * * ** *
806919 CGATTGTTTTTCATTTCTTTGCTGTAGTTTTGATTGCTTTCATTTGCTTATAGCAGTTAT
1 -GATTG-CTTTCATTTCTTTGCAGCAGTTTCAATTACTTTCATTTGCTTATAGCAGTTAT
806979 GATTGCTTTCATTTCTT
1 GATTGCTTTCATTTCTT
806996 ATTTGTTGCA
Statistics
Matches: 62, Mismatches: 12, Indels: 4
0.79 0.15 0.05
Matches are distributed among these distances:
58 16 0.26
59 45 0.73
60 1 0.02
ACGTcount: A:0.16, C:0.13, G:0.16, T:0.54
Consensus pattern (58 bp):
GATTGCTTTCATTTCTTTGCAGCAGTTTCAATTACTTTCATTTGCTTATAGCAGTTAT
Found at i:808071 original size:42 final size:42
Alignment explanation
Indices: 808025--808613 Score: 349
Period size: 42 Copynumber: 13.7 Consensus size: 42
808015 TCCCGGATCT
* * *
808025 AAGCCGACGGGTAGAC-AAAGGGTAAAGAAGTCTCTCGAGTCA
1 AAGCCGACAGGCAGACTAAA-GGTAAAGAAGTCTCTAGAGTCA
* * * * * *
808067 AAGCCAATAGGCAGACTAAAGATAAAGAAGTTTCTAGGGTTA
1 AAGCCGACAGGCAGACTAAAGGTAAAGAAGTCTCTAGAGTCA
** *
808109 AAGCCGACAGATAGACTAAAGGTAAAGAAGTCTC-AAAGGTCA
1 AAGCCGACAGGCAGACTAAAGGTAAAGAAGTCTCTAGA-GTCA
* * * **
808151 AAGCTGACAGGCA-AATAAAAGGTAAAAAAGTCTCCCGAGTCA
1 AAGCCGACAGGCAGACT-AAAGGTAAAGAAGTCTCTAGAGTCA
* ** * *
808193 AAGCTGACAGGCA-AAAAAAGGATAAAGAAAGTGT-TCCGAGTCAA
1 AAGCCGACAGGCAGACTAAAGG-TAAAG-AAGTCTCT-AGAGTC-A
** * * * * * * * *
808237 AAGGATAAAGAAAGTCTTCCGAGTCAAAGGATAAAGAAATTCTCTTGGGTTA
1 AA-G---CCGACAG---GCAGACT-AAAGG-TAAAG-AAGTCTCTAGAGTCA
* * *
808289 AAGTCGACAGGCAAACTAAAGGTAAAGAAGTCTCTAGGGTCA
1 AAGCCGACAGGCAGACTAAAGGTAAAGAAGTCTCTAGAGTCA
* * * *
808331 AAGCCGACAGGTAGACTAAAGGTAAGGAAGTCTCTCGGGTCA
1 AAGCCGACAGGCAGACTAAAGGTAAAGAAGTCTCTAGAGTCA
* * * * *
808373 AAGCTGACAAGTAGACTAAAGGCAAA-AAGGTCTCCT-GGGTCA
1 AAGCCGACAGGCAGACTAAAGGTAAAGAA-GTCT-CTAGAGTCA
* *
808415 AAGCCAACAGGCAGACTAAAGGTGAAGAAGTCTCTAGAGTCA
1 AAGCCGACAGGCAGACTAAAGGTAAAGAAGTCTCTAGAGTCA
* * * *
808457 AAGCCTACAGGTAGACTAAAGGTGAAGAAGTCTCCA-AGGTCA
1 AAGCCGACAGGCAGACTAAAGGTAAAGAAGTCTCTAGA-GTCA
* *
808499 AAGCTGACAGGCA-ACCTAAAGGTGAAA-AAGTCTCTAGGGTCA
1 AAGCCGACAGGCAGA-CTAAAGGT-AAAGAAGTCTCTAGAGTCA
* * *
808541 AAGCCGATAGGCA-AGCTAAAGGTGAAGAAGTCT-TCAGGGTCA
1 AAGCCGACAGGCAGA-CTAAAGGTAAAGAAGTCTCT-AGAGTCA
* *
808583 AAACCGATAGGCA-AGCTAAAGGTAAAGAAGT
1 AAGCCGACAGGCAGA-CTAAAGGTAAAGAAGT
808614 TAGAAGGATT
Statistics
Matches: 437, Mismatches: 82, Indels: 56
0.76 0.14 0.10
Matches are distributed among these distances:
41 17 0.04
42 348 0.80
43 26 0.06
44 8 0.02
45 4 0.01
48 8 0.02
51 2 0.00
52 4 0.01
53 19 0.04
54 1 0.00
ACGTcount: A:0.41, C:0.17, G:0.26, T:0.17
Consensus pattern (42 bp):
AAGCCGACAGGCAGACTAAAGGTAAAGAAGTCTCTAGAGTCA
Found at i:808272 original size:26 final size:27
Alignment explanation
Indices: 808208--808275 Score: 120
Period size: 27 Copynumber: 2.6 Consensus size: 27
808198 GACAGGCAAA
*
808208 AAAAGGATAAAGAAAGTGTTCCGAGTC
1 AAAAGGATAAAGAAAGTCTTCCGAGTC
808235 AAAAGGATAAAGAAAGTCTTCCGAGTC
1 AAAAGGATAAAGAAAGTCTTCCGAGTC
808262 -AAAGGATAAAGAAA
1 AAAAGGATAAAGAAA
808276 TTCTCTTGGG
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
26 14 0.35
27 26 0.65
ACGTcount: A:0.50, C:0.10, G:0.24, T:0.16
Consensus pattern (27 bp):
AAAAGGATAAAGAAAGTCTTCCGAGTC
Found at i:808779 original size:44 final size:43
Alignment explanation
Indices: 808724--808958 Score: 201
Period size: 44 Copynumber: 5.3 Consensus size: 43
808714 GTTAGAAGGG
* * * **
808724 TTTGACTAGGGTGGTAACCATACTTCAAA-CAGGATGGAGGTAGA
1 TTTGACCAGGGTGGTAACCATACATCAAATCAGAAT-GA-AAAGA
808768 TTTGACCAGGGTGGTAACCATACATCAAATCAGAATGAAAAGA
1 TTTGACCAGGGTGGTAACCATACATCAAATCAGAATGAAAAGA
* ** *
808811 ATTGACCAGGGTGGTAACCATATGTCAGATC-GAAATGACAAA-A
1 TTTGACCAGGGTGGTAACCATACATCAAATCAG-AATGA-AAAGA
* *
808854 GTTTGACTAGGGTGGTAACCATACATCAAA-CAGAATGGAAAAGGGT
1 -TTTGACCAGGGTGGTAACCATACATCAAATCAGAAT-GAAAA--GA
** *
808900 TTTGACCAGGGTGGTAACCATATGTCAAATCAAAAT-AAGAAGAA
1 TTTGACCAGGGTGGTAACCATACATCAAATCAGAATGAA-AAG-A
* *
808944 TCTGACTAGGGTGGT
1 TTTGACCAGGGTGGT
808959 TAGAGTTTGA
Statistics
Matches: 157, Mismatches: 22, Indels: 24
0.77 0.11 0.12
Matches are distributed among these distances:
42 1 0.01
43 44 0.28
44 74 0.47
45 33 0.21
46 5 0.03
ACGTcount: A:0.37, C:0.14, G:0.26, T:0.23
Consensus pattern (43 bp):
TTTGACCAGGGTGGTAACCATACATCAAATCAGAATGAAAAGA
Found at i:808950 original size:89 final size:87
Alignment explanation
Indices: 808770--808958 Score: 256
Period size: 89 Copynumber: 2.1 Consensus size: 87
808760 GAGGTAGATT
*
808770 TGACCAGGGTGGTAACCATACATCAAATCAGAATGAAAAGAATTGACCAGGGTGGTAACCATATG
1 TGACTAGGGTGGTAACCATACATCAAATCAGAATGAAAAGAATTGACCAGGGTGGTAACCATATG
* * * *
808835 TCAGATCGAAATGACAAAAGTT
66 TCAAATCAAAATAACAAAAGTC
**
808857 TGACTAGGGTGGTAACCATACATCAAA-CAGAATGGAAAAGGGTTTTGACCAGGGTGGTAACCAT
1 TGACTAGGGTGGTAACCATACATCAAATCAGAAT-GAAAA--GAATTGACCAGGGTGGTAACCAT
*
808921 ATGTCAAATCAAAATAAGAAGAA-TC
63 ATGTCAAATCAAAATAACAA-AAGTC
808946 TGACTAGGGTGGT
1 TGACTAGGGTGGT
808959 TAGAGTTTGA
Statistics
Matches: 90, Mismatches: 8, Indels: 6
0.87 0.08 0.06
Matches are distributed among these distances:
86 6 0.07
87 31 0.34
89 51 0.57
90 2 0.02
ACGTcount: A:0.39, C:0.15, G:0.25, T:0.22
Consensus pattern (87 bp):
TGACTAGGGTGGTAACCATACATCAAATCAGAATGAAAAGAATTGACCAGGGTGGTAACCATATG
TCAAATCAAAATAACAAAAGTC
Found at i:809046 original size:36 final size:35
Alignment explanation
Indices: 809000--809068 Score: 102
Period size: 36 Copynumber: 1.9 Consensus size: 35
808990 GTCAAATGAG
*
809000 GGAAGAAAAGAGTTTGACCAGATATAAGCAAACAA
1 GGAAGAAAAGAGTTTGACCAGATACAAGCAAACAA
* *
809035 GGAAGGAAAAGAGTTTGACCTGATACAATCAAAC
1 GGAA-GAAAAGAGTTTGACCAGATACAAGCAAAC
809069 GATGGTGGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
35 4 0.13
36 26 0.87
ACGTcount: A:0.48, C:0.13, G:0.23, T:0.16
Consensus pattern (35 bp):
GGAAGAAAAGAGTTTGACCAGATACAAGCAAACAA
Found at i:811564 original size:9 final size:9
Alignment explanation
Indices: 811552--811581 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
811542 ATCATCTAAA
811552 TTTTCTTTC
1 TTTTCTTTC
811561 TTTT-TTTC
1 TTTTCTTTC
811569 TTTTCTTTC
1 TTTTCTTTC
811578 TTTT
1 TTTT
811582 TTTTTTGTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.40
9 12 0.60
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (9 bp):
TTTTCTTTC
Found at i:811574 original size:17 final size:17
Alignment explanation
Indices: 811552--811584 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
811542 ATCATCTAAA
811552 TTTTCTTTCTTTTTTTC
1 TTTTCTTTCTTTTTTTC
811569 TTTTCTTTCTTTTTTT
1 TTTTCTTTCTTTTTTT
811585 TTTGTAAAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (17 bp):
TTTTCTTTCTTTTTTTC
Found at i:824885 original size:9 final size:8
Alignment explanation
Indices: 824871--824923 Score: 63
Period size: 8 Copynumber: 6.6 Consensus size: 8
824861 ATCTTAACTA
824871 TTTTTCCTC
1 TTTTT-CTC
*
824880 TTTTTCTT
1 TTTTTCTC
*
824888 TTTTTCTT
1 TTTTTCTC
*
824896 TTTTTCTT
1 TTTTTCTC
824904 TTTTTCT-
1 TTTTTCTC
824911 TTTTTCTC
1 TTTTTCTC
824919 TTTTT
1 TTTTT
824924 TTTTGCTAAG
Statistics
Matches: 42, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
7 7 0.17
8 30 0.71
9 5 0.12
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (8 bp):
TTTTTCTC
Found at i:824924 original size:9 final size:8
Alignment explanation
Indices: 824880--824925 Score: 83
Period size: 8 Copynumber: 5.6 Consensus size: 8
824870 ATTTTTCCTC
824880 TTTTTCTT
1 TTTTTCTT
824888 TTTTTCTT
1 TTTTTCTT
824896 TTTTTCTT
1 TTTTTCTT
824904 TTTTTCTT
1 TTTTTCTT
824912 TTTTCTCTT
1 TTTT-TCTT
824921 TTTTT
1 TTTTT
824926 TTGCTAAGTT
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
8 29 0.78
9 8 0.22
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (8 bp):
TTTTTCTT
Found at i:828516 original size:39 final size:39
Alignment explanation
Indices: 828472--828549 Score: 111
Period size: 39 Copynumber: 2.0 Consensus size: 39
828462 TTTCTTTTTG
** ** *
828472 TTTGCTTCATTTGATTTAGTGAGAAGGTTGGTGGAGTCA
1 TTTGCTTCATCCGATTTAGTGAGAAAATTAGTGGAGTCA
828511 TTTGCTTCATCCGATTTAGTGAGAAAATTAGTGGAGTCA
1 TTTGCTTCATCCGATTTAGTGAGAAAATTAGTGGAGTCA
828550 GTTTTTCTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.24, C:0.10, G:0.27, T:0.38
Consensus pattern (39 bp):
TTTGCTTCATCCGATTTAGTGAGAAAATTAGTGGAGTCA
Done.